-- dump date 20140619_003738 -- class Genbank::misc_feature -- table misc_feature_note -- id note 257310000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 257310000002 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 257310000003 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 257310000004 HMMPfam hit to PF01134, DE Glucose inhibited division protein A, score 0 257310000005 PS01280 Glucose inhibited division protein A family signature 1. 257310000006 Predicted helix-turn-helix motif with score 1129.000, SD 3.03 at aa 604-625, sequence ETIGQAARVSGVTPAAISLLLI 257310000007 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 257310000008 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 257310000009 PS00430 TonB-dependent receptor proteins signature 1. 257310000010 HMMPfam hit to PF02527, DE Glucose inhibited division protein, score 4.7e-42 257310000011 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 257310000012 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 257310000013 P-loop; other site 257310000014 Magnesium ion binding site [ion binding]; other site 257310000015 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 257310000016 Magnesium ion binding site [ion binding]; other site 257310000017 HMMPfam hit to PF00991, DE ParA family ATPase, score 1.5e-33 257310000018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310000019 Coenzyme A binding pocket [chemical binding]; other site 257310000020 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 2.5e-14 257310000021 ParB-like nuclease domain; Region: ParB; smart00470 257310000022 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 257310000023 HMMPfam hit to PF02195, DE ParB-like nuclease domain, score 5.9e-34 257310000024 Predicted helix-turn-helix motif with score 1537.000, SD 4.42 at aa 156-177, sequence LTHEQAAQAIGRSRSATSNLLR 257310000025 Signal peptide predicted for BB0006 by SignalP 2.0 HMM (Signal peptide probabilty 0.722) with cleavage site probability 0.254 between residues 21 and 22; signal peptide 257310000026 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 257310000027 active site 257310000028 homotetramer interface [polypeptide binding]; other site 257310000029 homodimer interface [polypeptide binding]; other site 257310000030 PS00144 Asparaginase / glutaminase active site signature 1. 257310000031 HMMPfam hit to PF00710, DE Asparaginase, score 6.4e-100 257310000032 PS00917 Asparaginase / glutaminase active site signature 2. 257310000033 elongation factor Tu; Reviewed; Region: PRK00049 257310000034 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 257310000035 G1 box; other site 257310000036 GEF interaction site [polypeptide binding]; other site 257310000037 GTP/Mg2+ binding site [chemical binding]; other site 257310000038 Switch I region; other site 257310000039 G2 box; other site 257310000040 G3 box; other site 257310000041 Switch II region; other site 257310000042 G4 box; other site 257310000043 G5 box; other site 257310000044 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 257310000045 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 257310000046 Antibiotic Binding Site [chemical binding]; other site 257310000047 HMMPfam hit to PF00009, DE Elongation factor Tu GTP binding domain, score 8.5e-98 257310000048 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000049 PS00301 GTP-binding elongation factors signature. 257310000050 HMMPfam hit to PF03144, DE Elongation factor Tu domain 2, score 5e-29 257310000051 HMMPfam hit to PF03143, DE Elongation factor Tu C-terminal domain, score 4.5e-60 257310000052 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 257310000053 3 probable transmembrane helices predicted for BB0008 by TMHMM2.0 at aa 16-35, 39-61 and 93-110 257310000054 HMMPfam hit to PF00584, DE SecE/Sec61-gamma subunits of protein translocation complex, score 5.5e-16 257310000055 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 257310000056 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 257310000057 putative homodimer interface [polypeptide binding]; other site 257310000058 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 257310000059 heterodimer interface [polypeptide binding]; other site 257310000060 homodimer interface [polypeptide binding]; other site 257310000061 HMMPfam hit to PF02357, DE Transcription termination factor nusG, score 1.3e-13 257310000062 HMMPfam hit to PF00467, DE KOW motif, score 8.6e-09 257310000063 PS01014 Transcription termination factor nusG signature. 257310000064 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 257310000065 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 257310000066 23S rRNA interface [nucleotide binding]; other site 257310000067 L7/L12 interface [polypeptide binding]; other site 257310000068 putative thiostrepton binding site; other site 257310000069 L25 interface [polypeptide binding]; other site 257310000070 HMMPfam hit to PF03946, DE Ribosomal protein L11, N-terminal domain, score 3.9e-33 257310000071 HMMPfam hit to PF00298, DE Ribosomal protein L11, RNA binding domain, score 2.3e-34 257310000072 PS00359 Ribosomal protein L11 signature. 257310000073 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 257310000074 mRNA/rRNA interface [nucleotide binding]; other site 257310000075 HMMPfam hit to PF00687, DE Ribosomal protein L1p/L10e family, score 1.3e-117 257310000076 PS01199 Ribosomal protein L1 signature. 257310000077 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 257310000078 23S rRNA interface [nucleotide binding]; other site 257310000079 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 257310000080 HMMPfam hit to PF00466, DE Ribosomal protein L10, score 1.5e-22 257310000081 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 257310000082 core dimer interface [polypeptide binding]; other site 257310000083 peripheral dimer interface [polypeptide binding]; other site 257310000084 L10 interface [polypeptide binding]; other site 257310000085 L11 interface [polypeptide binding]; other site 257310000086 putative EF-Tu interaction site [polypeptide binding]; other site 257310000087 putative EF-G interaction site [polypeptide binding]; other site 257310000088 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00542, DE Ribosomal protein L7/L12 C-terminal domain, score 3.1e-37 257310000089 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 257310000090 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 257310000091 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 257310000092 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 257310000093 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 257310000094 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 257310000095 RPB3 interaction site [polypeptide binding]; other site 257310000096 RPB1 interaction site [polypeptide binding]; other site 257310000097 RPB11 interaction site [polypeptide binding]; other site 257310000098 RPB10 interaction site [polypeptide binding]; other site 257310000099 HMMPfam hit to PF00562, DE RNA polymerase beta subunit, score 0 257310000100 PS01166 RNA polymerases beta chain signature. 257310000101 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 257310000102 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 257310000103 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 257310000104 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 257310000105 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 257310000106 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 257310000107 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 257310000108 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 257310000109 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 257310000110 DNA binding site [nucleotide binding] 257310000111 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 257310000112 HMMPfam hit to PF00623, DE RNA polymerase alpha subunit, score 1.4e-274 257310000113 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000114 Signal peptide predicted for BB0016 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.612 between residues 32 and 33; signal peptide 257310000115 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310000116 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 257310000117 substrate binding site [chemical binding]; other site 257310000118 activation loop (A-loop); other site 257310000119 PEGA domain; Region: PEGA; pfam08308 257310000120 1 probable transmembrane helix predicted for BB0017 by TMHMM2.0 at aa 223-245 257310000121 Signal peptide predicted for BB0018 by SignalP 2.0 HMM (Signal peptide probabilty 0.671) with cleavage site probability 0.192 between residues 32 and 33; signal peptide 257310000122 CHASE2 domain; Region: CHASE2; pfam05226 257310000123 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 257310000124 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310000125 dimer interface [polypeptide binding]; other site 257310000126 phosphorylation site [posttranslational modification] 257310000127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310000128 ATP binding site [chemical binding]; other site 257310000129 Mg2+ binding site [ion binding]; other site 257310000130 G-X-G motif; other site 257310000131 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 6.6e-38 257310000132 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 0.0055 257310000133 Signal peptide predicted for BB0019 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.967 between residues 23 and 24; signal peptide 257310000134 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 257310000135 FecR protein; Region: FecR; pfam04773 257310000136 HMMPfam hit to PF01476, DE LysM domain, score 0.00042 257310000137 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310000138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310000139 active site 257310000140 phosphorylation site [posttranslational modification] 257310000141 intermolecular recognition site; other site 257310000142 dimerization interface [polypeptide binding]; other site 257310000143 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310000144 DNA binding site [nucleotide binding] 257310000145 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 3.8e-10 257310000146 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 3.2e-34 257310000147 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310000148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310000149 active site 257310000150 phosphorylation site [posttranslational modification] 257310000151 intermolecular recognition site; other site 257310000152 dimerization interface [polypeptide binding]; other site 257310000153 DNA binding site [nucleotide binding] 257310000154 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 257310000155 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 0.0016 257310000156 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 2.4e-05 257310000157 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 257310000158 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 257310000159 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01545, DE Cation efflux family, score 5e-54 257310000160 6 probable transmembrane helices predicted for BB0022 by TMHMM2.0 at aa 29-51, 58-77, 97-119, 132-154, 181-200 and 205-227 257310000161 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 257310000162 putative metal binding site [ion binding]; other site 257310000163 putative homodimer interface [polypeptide binding]; other site 257310000164 putative homotetramer interface [polypeptide binding]; other site 257310000165 putative homodimer-homodimer interface [polypeptide binding]; other site 257310000166 putative allosteric switch controlling residues; other site 257310000167 HMMPfam hit to PF02583, DE Uncharacterized BCR, COG1937, score 4e-07 257310000168 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 257310000169 S17 interaction site [polypeptide binding]; other site 257310000170 S8 interaction site; other site 257310000171 16S rRNA interaction site [nucleotide binding]; other site 257310000172 streptomycin interaction site [chemical binding]; other site 257310000173 23S rRNA interaction site [nucleotide binding]; other site 257310000174 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 257310000175 HMMPfam hit to PF00164, DE Ribosomal protein S12, score 3.8e-79 257310000176 PS00055 Ribosomal protein S12 signature. 257310000177 30S ribosomal protein S7; Validated; Region: PRK05302 257310000178 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00177, DE Ribosomal protein S7p/S5e, score 2.9e-89 257310000179 PS00052 Ribosomal protein S7 signature. 257310000180 elongation factor G; Reviewed; Region: PRK00007 257310000181 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 257310000182 G1 box; other site 257310000183 putative GEF interaction site [polypeptide binding]; other site 257310000184 GTP/Mg2+ binding site [chemical binding]; other site 257310000185 Switch I region; other site 257310000186 G2 box; other site 257310000187 G3 box; other site 257310000188 Switch II region; other site 257310000189 G4 box; other site 257310000190 G5 box; other site 257310000191 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 257310000192 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 257310000193 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 257310000194 HMMPfam hit to PF00009, DE Elongation factor Tu GTP binding domain, score 4e-107 257310000195 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000196 PS00301 GTP-binding elongation factors signature. 257310000197 HMMPfam hit to PF03144, DE Elongation factor Tu domain 2, score 1e-26 257310000198 HMMPfam hit to PF03764, DE Elongation factor G, domain IV, score 1.7e-71 257310000199 HMMPfam hit to PF00679, DE Elongation factor G C-terminus, score 9.1e-49 257310000200 elongation factor Tu; Reviewed; Region: PRK00049 257310000201 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 257310000202 G1 box; other site 257310000203 GEF interaction site [polypeptide binding]; other site 257310000204 GTP/Mg2+ binding site [chemical binding]; other site 257310000205 Switch I region; other site 257310000206 G2 box; other site 257310000207 G3 box; other site 257310000208 Switch II region; other site 257310000209 G4 box; other site 257310000210 G5 box; other site 257310000211 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 257310000212 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 257310000213 Antibiotic Binding Site [chemical binding]; other site 257310000214 HMMPfam hit to PF00009, DE Elongation factor Tu GTP binding domain, score 6.2e-93 257310000215 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000216 PS00301 GTP-binding elongation factors signature. 257310000217 HMMPfam hit to PF03144, DE Elongation factor Tu domain 2, score 5e-29 257310000218 HMMPfam hit to PF03143, DE Elongation factor Tu C-terminal domain, score 4.5e-60 257310000219 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 257310000220 HMMPfam hit to PF00338, DE Ribosomal protein S10p/S20e, score 9.3e-57 257310000221 PS00361 Ribosomal protein S10 signature. 257310000222 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 257310000223 HMMPfam hit to PF00297, DE Ribosomal protein L3, score 2.1e-87 257310000224 PS00474 Ribosomal protein L3 signature. 257310000225 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 257310000226 HMMPfam hit to PF00573, DE Ribosomal protein L4/L1 family, score 7.8e-47 257310000227 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 257310000228 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00276, DE Ribosomal protein L23, score 1.2e-25 257310000229 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 257310000230 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 257310000231 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 257310000232 HMMPfam hit to PF00181, DE Ribosomal Proteins L2, RNA binding domain, score 3.2e-45 257310000233 HMMPfam hit to PF03947, DE Ribosomal Proteins L2, C-terminal domain, score 3.9e-82 257310000234 PS00467 Ribosomal protein L2 signature. 257310000235 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 257310000236 HMMPfam hit to PF00203, DE Ribosomal protein S19, score 1.1e-50 257310000237 PS00323 Ribosomal protein S19 signature. 257310000238 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 257310000239 putative translocon binding site; other site 257310000240 protein-rRNA interface [nucleotide binding]; other site 257310000241 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00237, DE Ribosomal protein L22p/L17e, score 1.6e-49 257310000242 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000243 PS00464 Ribosomal protein L22 signature. 257310000244 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 257310000245 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 257310000246 G-X-X-G motif; other site 257310000247 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 257310000248 HMMPfam hit to PF00417, DE Ribosomal protein S3, N-terminal domain, score 1.8e-25 257310000249 HMMPfam hit to PF00013, DE KH domain, score 5.5e-07 257310000250 HMMPfam hit to PF00189, DE Ribosomal protein S3, C-terminal domain, score 2e-51 257310000251 PS00548 Ribosomal protein S3 signature. 257310000252 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 257310000253 23S rRNA interface [nucleotide binding]; other site 257310000254 5S rRNA interface [nucleotide binding]; other site 257310000255 putative antibiotic binding site [chemical binding]; other site 257310000256 L25 interface [polypeptide binding]; other site 257310000257 L27 interface [polypeptide binding]; other site 257310000258 HMMPfam hit to PF00252, DE Ribosomal protein L16, score 7.7e-88 257310000259 PS00586 Ribosomal protein L16 signature 1. 257310000260 PS00701 Ribosomal protein L16 signature 2. 257310000261 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 257310000262 23S rRNA interface [nucleotide binding]; other site 257310000263 putative translocon interaction site; other site 257310000264 signal recognition particle (SRP54) interaction site; other site 257310000265 L23 interface [polypeptide binding]; other site 257310000266 trigger factor interaction site; other site 257310000267 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00831, DE Ribosomal L29 protein, score 1.3e-14 257310000268 PS00579 Ribosomal protein L29 signature. 257310000269 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 257310000270 HMMPfam hit to PF00366, DE Ribosomal protein S17, score 7.3e-32 257310000271 PS00056 Ribosomal protein S17 signature. 257310000272 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310000273 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 2.5e-07 257310000274 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310000275 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 257310000276 tetramerization interface [polypeptide binding]; other site 257310000277 NAD(P) binding site [chemical binding]; other site 257310000278 catalytic residues [active] 257310000279 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 3.7e-175 257310000280 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 257310000281 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00238, DE Ribosomal protein L14p/L23e, score 4.9e-72 257310000282 PS00049 Ribosomal protein L14 signature. 257310000283 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 257310000284 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 257310000285 RNA binding site [nucleotide binding]; other site 257310000286 HMMPfam hit to PF00467, DE KOW motif, score 0.00028 257310000287 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 257310000288 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 257310000289 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 257310000290 HMMPfam hit to PF00281, DE Ribosomal protein L5, score 8.5e-25 257310000291 PS00358 Ribosomal protein L5 signature. 257310000292 HMMPfam hit to PF00673, DE ribosomal L5P family C-terminus, score 4.2e-51 257310000293 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 257310000294 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00253, DE Ribosomal protein S14p/S29e, score 3.2e-51 257310000295 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 257310000296 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00410, DE Ribosomal protein S8, score 7.9e-63 257310000297 PS00053 Ribosomal protein S8 signature. 257310000298 This hit extended beyond the end of the feature by 1 aa and was clipped.; PS00294 Prenyl group binding site (CAAX box). 257310000299 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 257310000300 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 257310000301 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 257310000302 HMMPfam hit to PF00347, DE Ribosomal protein L6, score 1.7e-21 257310000303 HMMPfam hit to PF00347, DE Ribosomal protein L6, score 7.4e-28 257310000304 PS00525 Ribosomal protein L6 signature 1. 257310000305 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 257310000306 5S rRNA interface [nucleotide binding]; other site 257310000307 L27 interface [polypeptide binding]; other site 257310000308 23S rRNA interface [nucleotide binding]; other site 257310000309 L5 interface [polypeptide binding]; other site 257310000310 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00861, DE Ribosomal L18p/L5e family, score 2.7e-39 257310000311 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 257310000312 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 257310000313 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 257310000314 HMMPfam hit to PF00333, DE Ribosomal protein S5, N-terminal domain, score 1.1e-25 257310000315 HMMPfam hit to PF03719, DE Ribosomal protein S5, C-terminal domain, score 2.9e-26 257310000316 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 257310000317 23S rRNA binding site [nucleotide binding]; other site 257310000318 HMMPfam hit to PF00327, DE Ribosomal protein L30p/L7e, score 3.1e-15 257310000319 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 257310000320 HMMPfam hit to PF01305, DE Ribosomal protein L15 amino terminal region, score 1.5e-48 257310000321 HMMPfam hit to PF00256, DE Ribosomal protein L15, score 1e-05 257310000322 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 257310000323 SecY translocase; Region: SecY; pfam00344 257310000324 10 probable transmembrane helices predicted for BB0051 by TMHMM2.0 at aa 21-43, 75-97, 117-139, 149-171, 178-200, 210-232, 269-291, 311-333, 364-386 and 391-413 257310000325 HMMPfam hit to PF00344, DE eubacterial secY protein, score 1.4e-179 257310000326 PS00755 Protein secY signature 1. 257310000327 PS00756 Protein secY signature 2. 257310000328 PS00095 C-5 cytosine-specific DNA methylases C-terminal signature. 257310000329 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 257310000330 rRNA binding site [nucleotide binding]; other site 257310000331 predicted 30S ribosome binding site; other site 257310000332 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00575, DE S1 RNA binding domain, score 3.4e-07 257310000333 PS00215 Mitochondrial energy transfer proteins signature. 257310000334 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 257310000335 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00444, DE Ribosomal protein L36, score 8.7e-16 257310000336 PS00828 Ribosomal protein L36 signature. 257310000337 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 257310000338 30S ribosomal protein S13; Region: bact_S13; TIGR03631 257310000339 HMMPfam hit to PF00416, DE Ribosomal protein S13/S18, score 2.4e-50 257310000340 PS00646 Ribosomal protein S13 signature. 257310000341 30S ribosomal protein S11; Validated; Region: PRK05309 257310000342 HMMPfam hit to PF00411, DE Ribosomal protein S11, score 9.4e-68 257310000343 PS00054 Ribosomal protein S11 signature. 257310000344 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 257310000345 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 257310000346 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 257310000347 RNA binding surface [nucleotide binding]; other site 257310000348 HMMPfam hit to PF00163, DE Ribosomal protein S4/S9 N-terminal domain, score 5.2e-33 257310000349 PS00632 Ribosomal protein S4 signature. 257310000350 HMMPfam hit to PF01479, DE S4 domain, score 4.2e-18 257310000351 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 257310000352 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 257310000353 alphaNTD homodimer interface [polypeptide binding]; other site 257310000354 alphaNTD - beta interaction site [polypeptide binding]; other site 257310000355 alphaNTD - beta' interaction site [polypeptide binding]; other site 257310000356 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 257310000357 HMMPfam hit to PF01000, DE Bacterial RNA polymerase, alpha chain, N terminal domain, score 6.5e-104 257310000358 HMMPfam hit to PF03118, DE Bacterial RNA polymerase, alpha chain C terminal domain, score 1.9e-26 257310000359 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 257310000360 HMMPfam hit to PF01196, DE Ribosomal protein L17, score 4.3e-57 257310000361 PS01167 Ribosomal protein L17 signature. 257310000362 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 257310000363 nucleotide binding site/active site [active] 257310000364 HIT family signature motif; other site 257310000365 catalytic residue [active] 257310000366 HMMPfam hit to PF01230, DE HIT family, score 2.5e-13 257310000367 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 257310000368 HMMPfam hit to PF03091, DE CutA1 divalent ion tolerance protein, score 1e-26 257310000369 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 257310000370 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 257310000371 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 257310000372 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 257310000373 DsbD alpha interface [polypeptide binding]; other site 257310000374 catalytic residues [active] 257310000375 9 probable transmembrane helices predicted for BB0061 by TMHMM2.0 at aa 21-43, 217-239, 252-274, 289-311, 336-358, 368-390, 410-429, 433-450 and 463-485 257310000376 HMMPfam hit to PF02683, DE Cytochrome C biogenesis protein transmembrane region, score 2.9e-06 257310000377 PS00194 Thioredoxin family active site. 257310000378 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310000379 EamA-like transporter family; Region: EamA; pfam00892 257310000380 EamA-like transporter family; Region: EamA; pfam00892 257310000381 10 probable transmembrane helices predicted for BB0062 by TMHMM2.0 at aa 41-63, 68-90, 102-124, 129-151, 160-182, 187-209, 216-235, 250-272, 284-301 and 305-324 257310000382 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 8.9e-21 257310000383 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 6.4e-19 257310000384 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310000385 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 257310000386 dimer interface [polypeptide binding]; other site 257310000387 active site 257310000388 aspartate-rich active site metal binding site; other site 257310000389 allosteric magnesium binding site [ion binding]; other site 257310000390 Schiff base residues; other site 257310000391 HMMPfam hit to PF00490, DE Delta-aminolevulinic acid dehydratase, score 7.5e-194 257310000392 PS00169 Delta-aminolevulinic acid dehydratase active site. 257310000393 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 257310000394 G1 box; other site 257310000395 GTP/Mg2+ binding site [chemical binding]; other site 257310000396 Switch I region; other site 257310000397 G2 box; other site 257310000398 G3 box; other site 257310000399 Switch II region; other site 257310000400 G4 box; other site 257310000401 G5 box; other site 257310000402 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000403 Signal peptide predicted for BB0065 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.914 between residues 26 and 27; signal peptide 257310000404 Cytochrome c; Region: Cytochrom_C; cl11414 257310000405 Cytochrome c; Region: Cytochrom_C; cl11414 257310000406 HMMPfam hit to PF00034, DE Cytochrome c, score 2.3e-06 257310000407 PS00190 Cytochrome c family heme-binding site signature. 257310000408 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00034, DE Cytochrome c, score 0.18 257310000409 PS00190 Cytochrome c family heme-binding site signature. 257310000410 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 257310000411 ResB-like family; Region: ResB; pfam05140 257310000412 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 257310000413 ResB-like family; Region: ResB; pfam05140 257310000414 4 probable transmembrane helices predicted for BB0066 by TMHMM2.0 at aa 30-49, 77-99, 175-193 and 630-648 257310000415 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 257310000416 13 probable transmembrane helices predicted for BB0067 by TMHMM2.0 at aa 34-53, 57-76, 83-100, 120-139, 146-165, 180-202, 211-233, 255-277, 284-306, 311-333, 354-373, 388-405 and 412-434 257310000417 HMMPfam hit to PF01578, DE Cytochrome C assembly protein, score 8.1e-13 257310000418 diaminopimelate decarboxylase; Region: lysA; TIGR01048 257310000419 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 257310000420 active site 257310000421 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 257310000422 substrate binding site [chemical binding]; other site 257310000423 catalytic residues [active] 257310000424 dimer interface [polypeptide binding]; other site 257310000425 HMMPfam hit to PF00278, DE Pyridoxal-dependent decarboxylase, C-terminal sheet domain, score 2.3e-38 257310000426 HMMPfam hit to PF02784, DE Pyridoxal-dependent decarboxylase, pyridoxal binding domain, score 6e-93 257310000427 PS00879 Orn/DAP/Arg decarboxylases family 2 signature 2. 257310000428 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 257310000429 putative iron binding site [ion binding]; other site 257310000430 HMMPfam hit to PF01491, DE Frataxin-like domain, score 2.3e-25 257310000431 Signal peptide predicted for BB0070 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.685 between residues 47 and 48; signal peptide 257310000432 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 257310000433 Transglycosylase; Region: Transgly; pfam00912 257310000434 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 257310000435 HMMPfam hit to PF00905, DE Penicillin binding protein transpeptidase domain, score 1.6e-28 257310000436 Predicted helix-turn-helix motif with score 1172.000, SD 3.18 at aa 671-692, sequence LKRSDVAGKTGTTNESVDAWFS 257310000437 HMMPfam hit to PF00912, DE Transglycosylase, score 5e-89 257310000438 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 257310000439 shikimate kinase; Reviewed; Region: aroK; PRK00131 257310000440 ADP binding site [chemical binding]; other site 257310000441 magnesium binding site [ion binding]; other site 257310000442 putative shikimate binding site; other site 257310000443 HMMPfam hit to PF01202, DE Shikimate kinase, score 1.1e-59 257310000444 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000445 PS01128 Shikimate kinase signature. 257310000446 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 257310000447 active site 257310000448 dimer interface [polypeptide binding]; other site 257310000449 metal binding site [ion binding]; metal-binding site 257310000450 HMMPfam hit to PF01761, DE 3-dehydroquinate synthase, score 5e-168 257310000451 1 probable transmembrane helix predicted for BB0072 by TMHMM2.0 at aa 96-118 257310000452 PS00307 Legume lectins beta-chain signature. 257310000453 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 257310000454 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257310000455 Zn2+ binding site [ion binding]; other site 257310000456 Mg2+ binding site [ion binding]; other site 257310000457 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 257310000458 HMMPfam hit to PF01966, DE HD domain, score 4e-14 257310000459 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 257310000460 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 257310000461 putative C-terminal domain interface [polypeptide binding]; other site 257310000462 putative GSH binding site (G-site) [chemical binding]; other site 257310000463 putative dimer interface [polypeptide binding]; other site 257310000464 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 257310000465 putative substrate binding pocket (H-site) [chemical binding]; other site 257310000466 putative N-terminal domain interface [polypeptide binding]; other site 257310000467 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 2.2e-08 257310000468 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 257310000469 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 257310000470 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 257310000471 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 257310000472 HMMPfam hit to PF00005, DE ABC transporter score 1e-27 257310000473 PS00211 ABC transporters family signature. 257310000474 PS00190 Cytochrome c family heme-binding site signature. 257310000475 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000476 HMMPfam hit to PF00005, DE ABC transporter score 4.4e-06 257310000477 PS00211 ABC transporters family signature. 257310000478 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000479 Signal peptide predicted for BB0076 by SignalP 2.0 HMM (Signal peptide probabilty 0.975) with cleavage site probability 0.391 between residues 41 and 42; signal peptide 257310000480 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310000481 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310000482 putative substrate translocation pore; other site 257310000483 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310000484 12 probable transmembrane helices predicted for BB0076 by TMHMM2.0 at aa 17-39, 54-76, 83-102, 106-128, 140-162, 172-194, 215-237, 252-274, 281-300, 304-321, 342-364 and 368-390 257310000485 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0029 257310000486 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 257310000487 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 257310000488 dimer interface [polypeptide binding]; other site 257310000489 ssDNA binding site [nucleotide binding]; other site 257310000490 tetramer (dimer of dimers) interface [polypeptide binding]; other site 257310000491 HMMPfam hit to PF00436, DE Single-strand binding protein family, score 2.3e-61 257310000492 PS00735 Single-strand binding protein family signature 1. 257310000493 PS00736 Single-strand binding protein family signature 2. 257310000494 Signal peptide predicted for BB0078 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.848 between residues 23 and 24; signal peptide 257310000495 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 257310000496 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310000497 N-terminal plug; other site 257310000498 ligand-binding site [chemical binding]; other site 257310000499 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 7.2e-22 257310000500 This hit extended beyond the end of the feature by 1 aa and was clipped.; PS01156 TonB-dependent receptor proteins signature 2. 257310000501 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 257310000502 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 257310000503 HMMPfam hit to PF03328, DE HpcH/HpaI aldolase family, score 9.2e-20 257310000504 Signal peptide predicted for BB0081 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.995 between residues 37 and 38; signal peptide 257310000505 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310000506 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.5e-59 257310000507 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310000508 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310000509 DNA-binding site [nucleotide binding]; DNA binding site 257310000510 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 257310000511 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 5.9e-06 257310000512 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310000513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310000514 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 257310000515 substrate binding pocket [chemical binding]; other site 257310000516 dimerization interface [polypeptide binding]; other site 257310000517 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.6e-26 257310000518 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 9.9e-23 257310000519 PS00044 Bacterial regulatory proteins, lysR family signature. 257310000520 Predicted helix-turn-helix motif with score 1238.000, SD 3.40 at aa 21-42, sequence GHVTRAAERLAMSQSAVSKGLA 257310000521 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06151 257310000522 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 257310000523 active site 257310000524 HMMPfam hit to PF01685, DE Chlorohydrolase, score 1.5e-20 257310000525 Signal peptide predicted for BB0085 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.993 between residues 22 and 23; signal peptide 257310000526 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310000527 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.1e-79 257310000528 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310000529 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 257310000530 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 8.2e-43 257310000531 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 257310000532 Signal peptide predicted for BB0088 by SignalP 2.0 HMM (Signal peptide probabilty 0.974) with cleavage site probability 0.638 between residues 31 and 32; signal peptide 257310000533 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310000534 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310000535 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310000536 dimerization interface [polypeptide binding]; other site 257310000537 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.3e-20 257310000538 Predicted helix-turn-helix motif with score 1583.000, SD 4.58 at aa 25-46, sequence DSLSAAAQALNITQSAVSQTVT 257310000539 PS00044 Bacterial regulatory proteins, lysR family signature. 257310000540 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.3e-19 257310000541 Signal peptide predicted for BB0089 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.959 between residues 29 and 30; signal peptide 257310000542 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 257310000543 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 257310000544 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310000545 membrane-bound complex binding site; other site 257310000546 hinge residues; other site 257310000547 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310000548 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310000549 dimer interface [polypeptide binding]; other site 257310000550 conserved gate region; other site 257310000551 putative PBP binding loops; other site 257310000552 ABC-ATPase subunit interface; other site 257310000553 6 probable transmembrane helices predicted for BB0090 by TMHMM2.0 at aa 12-31, 71-90, 103-125, 130-152, 183-205 and 225-247 257310000554 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 5.2e-06 257310000555 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310000556 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310000557 Walker A/P-loop; other site 257310000558 ATP binding site [chemical binding]; other site 257310000559 Q-loop/lid; other site 257310000560 ABC transporter signature motif; other site 257310000561 Walker B; other site 257310000562 D-loop; other site 257310000563 H-loop/switch region; other site 257310000564 HMMPfam hit to PF00005, DE ABC transporter score 1.3e-65 257310000565 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000566 PS00211 ABC transporters family signature. 257310000567 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310000568 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 257310000569 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310000570 Signal peptide predicted for BB0093 by SignalP 2.0 HMM (Signal peptide probabilty 0.687) with cleavage site probability 0.684 between residues 41 and 42; signal peptide 257310000571 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310000572 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310000573 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 257310000574 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 1.8e-11 257310000575 Predicted helix-turn-helix motif with score 1374.000, SD 3.87 at aa 44-65, sequence LTLGEVAKRLGISKSGVFSRVG 257310000576 malate synthase G; Provisional; Region: PRK02999 257310000577 active site 257310000578 HMMPfam hit to PF01274, DE Malate synthase, score 0 257310000579 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 257310000580 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310000581 DNA-binding site [nucleotide binding]; DNA binding site 257310000582 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 257310000583 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 2.7e-16 257310000584 PS00043 Bacterial regulatory proteins, gntR family signature. 257310000585 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 257310000586 Signal peptide predicted for BB0098 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.993 between residues 20 and 21; signal peptide 257310000587 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 257310000588 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 257310000589 UbiA prenyltransferase family; Region: UbiA; pfam01040 257310000590 9 probable transmembrane helices predicted for BB0099 by TMHMM2.0 at aa 40-62, 66-88, 109-131, 135-152, 159-176, 186-208, 229-248, 253-272 and 284-306 257310000591 HMMPfam hit to PF01040, DE UbiA prenyltransferase family, score 2.8e-62 257310000592 PS00943 UbiA prenyltransferase family signature. 257310000593 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 257310000594 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310000595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310000596 homodimer interface [polypeptide binding]; other site 257310000597 catalytic residue [active] 257310000598 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 2.3e-06 257310000599 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 257310000600 GAF domain; Region: GAF_2; pfam13185 257310000601 HMMPfam hit to PF01590, DE GAF domain, score 5.1e-06 257310000602 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 257310000603 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 257310000604 dimer interface [polypeptide binding]; other site 257310000605 active site 257310000606 catalytic residue [active] 257310000607 HMMPfam hit to PF00701, DE Dihydrodipicolinate synthetase family, score 1.9e-43 257310000608 PS00665 Dihydrodipicolinate synthetase signature 1. 257310000609 PS00666 Dihydrodipicolinate synthetase signature 2. 257310000610 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 257310000611 HMMPfam hit to PF01598, DE Sterol desaturase, score 1.7e-05 257310000612 3 probable transmembrane helices predicted for BB0104 by TMHMM2.0 at aa 13-35, 67-89 and 99-118 257310000613 Signal peptide predicted for BB0105 by SignalP 2.0 HMM (Signal peptide probabilty 0.628) with cleavage site probability 0.624 between residues 27 and 28; signal peptide 257310000614 Fatty acid desaturase; Region: FA_desaturase; pfam00487 257310000615 5 probable transmembrane helices predicted for BB0105 by TMHMM2.0 at aa 16-33, 37-54, 67-89, 118-140 and 160-182 257310000616 HMMPfam hit to PF00487, DE Fatty acid desaturase, score 0.00014 257310000617 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 257310000618 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 257310000619 dimer interface [polypeptide binding]; other site 257310000620 active site 257310000621 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310000622 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310000623 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 257310000624 12 probable transmembrane helices predicted for BB0108 by TMHMM2.0 at aa 20-42, 52-74, 95-117, 132-150, 157-179, 189-211, 232-254, 274-296, 331-350, 355-377, 390-412 and 416-438 257310000625 HMMPfam hit to PF00324, DE Amino acid permease, score 0.024 257310000626 Signal peptide predicted for BB0109 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.865 between residues 33 and 34; signal peptide 257310000627 Methyltransferase domain; Region: Methyltransf_31; pfam13847 257310000628 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310000629 S-adenosylmethionine binding site [chemical binding]; other site 257310000630 Signal peptide predicted for BB0110 by SignalP 2.0 HMM (Signal peptide probabilty 0.962) with cleavage site probability 0.910 between residues 44 and 45; signal peptide 257310000631 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 257310000632 choline dehydrogenase; Validated; Region: PRK02106 257310000633 lycopene cyclase; Region: lycopene_cycl; TIGR01789 257310000634 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 257310000635 HMMPfam hit to PF00732, DE GMC oxidoreductase, score 8.5e-184 257310000636 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310000637 PS00623 GMC oxidoreductases signature 1. 257310000638 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 257310000639 10 probable transmembrane helices predicted for BB0112 by TMHMM2.0 at aa 7-29, 49-71, 83-105, 125-147, 168-190, 263-285, 298-320, 335-357, 370-392 and 407-426 257310000640 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 257310000641 Signal peptide predicted for BB0114 by SignalP 2.0 HMM (Signal peptide probabilty 0.823) with cleavage site probability 0.419 between residues 52 and 53; signal peptide 257310000642 Uncharacterized conserved protein [Function unknown]; Region: COG2928 257310000643 2 probable transmembrane helices predicted for BB0114 by TMHMM2.0 at aa 13-35 and 55-77 257310000644 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 257310000645 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 257310000646 dimer interface [polypeptide binding]; other site 257310000647 anticodon binding site; other site 257310000648 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 257310000649 homodimer interface [polypeptide binding]; other site 257310000650 motif 1; other site 257310000651 active site 257310000652 motif 2; other site 257310000653 GAD domain; Region: GAD; pfam02938 257310000654 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 257310000655 motif 3; other site 257310000656 HMMPfam hit to PF01336, DE OB-fold nucleic acid binding domain, score 2.1e-13 257310000657 HMMPfam hit to PF00152, DE tRNA synthetases class II (D, K and N), score 1.2e-13 257310000658 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310000659 HMMPfam hit to PF02938, DE GAD domain, score 1.1e-39 257310000660 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310000661 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 257310000662 putative catalytic site [active] 257310000663 putative metal binding site [ion binding]; other site 257310000664 putative phosphate binding site [ion binding]; other site 257310000665 HMMPfam hit to PF03372, DE Endonuclease/Exonuclease/phosphatase family, score 2.8e-23 257310000666 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 257310000667 PLD-like domain; Region: PLDc_2; pfam13091 257310000668 putative active site [active] 257310000669 catalytic site [active] 257310000670 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 257310000671 PLD-like domain; Region: PLDc_2; pfam13091 257310000672 putative active site [active] 257310000673 catalytic site [active] 257310000674 HMMPfam hit to PF00614, DE Phospholipase D. Active site motif, score 2.1e-05 257310000675 HMMPfam hit to PF00614, DE Phospholipase D. Active site motif, score 0.028 257310000676 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 257310000677 EamA-like transporter family; Region: EamA; pfam00892 257310000678 EamA-like transporter family; Region: EamA; pfam00892 257310000679 10 probable transmembrane helices predicted for BB0118 by TMHMM2.0 at aa 7-26, 30-52, 64-86, 91-113, 120-137, 147-165, 178-200, 210-232, 239-258 and 263-285 257310000680 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 8.7e-22 257310000681 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 1.5e-21 257310000682 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310000683 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310000684 putative substrate translocation pore; other site 257310000685 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310000686 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0028 257310000687 14 probable transmembrane helices predicted for BB0119 by TMHMM2.0 at aa 28-50, 60-82, 95-114, 118-140, 153-175, 180-202, 215-234, 244-266, 287-306, 321-343, 352-374, 378-400, 412-434 and 444-463 257310000688 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 257310000689 putative hydrophobic ligand binding site [chemical binding]; other site 257310000690 1 probable transmembrane helix predicted for BB0120 by TMHMM2.0 at aa 169-188 257310000691 O-antigen biosynthetic locus 257310000692 Signal peptide predicted for BB0121 by SignalP 2.0 HMM (Signal peptide probabilty 0.606) with cleavage site probability 0.564 between residues 23 and 24; signal peptide 257310000693 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 257310000694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310000695 NAD(P) binding site [chemical binding]; other site 257310000696 active site 257310000697 HMMPfam hit to PF01370, DE NAD dependent epimerase/dehydratase family, score 3.5e-59 257310000698 PS00061 Short-chain dehydrogenases/reductases family signature. 257310000699 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 257310000700 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 257310000701 inhibitor-cofactor binding pocket; inhibition site 257310000702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310000703 catalytic residue [active] 257310000704 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310000705 HMMPfam hit to PF01041, DE DegT/DnrJ/EryC1/StrS aminotransferase family, score 6.2e-147 257310000706 PS00142 Neutral zinc metallopeptidases, zinc-binding region signature. 257310000707 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 257310000708 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 257310000709 dimer interface [polypeptide binding]; other site 257310000710 active site 257310000711 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 257310000712 Ligand Binding Site [chemical binding]; other site 257310000713 Molecular Tunnel; other site 257310000714 HMMPfam hit to PF00310, DE Glutamine amidotransferases class-II, score 4.8e-21 257310000715 HMMPfam hit to PF00733, DE Asparagine synthase, score 7.9e-15 257310000716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310000717 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 257310000718 NAD(P) binding site [chemical binding]; other site 257310000719 active site 257310000720 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 257310000721 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 257310000722 active site 257310000723 metal binding site [ion binding]; metal-binding site 257310000724 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 3.4e-14 257310000725 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 257310000726 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 257310000727 Methyltransferase domain; Region: Methyltransf_23; pfam13489 257310000728 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310000729 S-adenosylmethionine binding site [chemical binding]; other site 257310000730 Catalytic domain of a putative polysaccharide deacetylase WbmS from Bordetella bronchiseptica and similar proteins; Region: CE4_WbmS; cd10920 257310000731 active site 257310000732 Zn binding site [ion binding]; other site 257310000733 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 257310000734 active site 257310000735 substrate binding site [chemical binding]; other site 257310000736 cosubstrate binding site; other site 257310000737 catalytic site [active] 257310000738 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 257310000739 active site 257310000740 HMMPfam hit to PF00551, DE Formyl transferase, score 4.3e-09 257310000741 HMMPfam hit to PF02911, DE Formyl transferase, C-terminal domain, score 1.2e-14 257310000742 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 257310000743 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 257310000744 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 257310000745 Walker A/P-loop; other site 257310000746 ATP binding site [chemical binding]; other site 257310000747 Q-loop/lid; other site 257310000748 ABC transporter signature motif; other site 257310000749 Walker B; other site 257310000750 D-loop; other site 257310000751 H-loop/switch region; other site 257310000752 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 257310000753 putative carbohydrate binding site [chemical binding]; other site 257310000754 HMMPfam hit to PF00005, DE ABC transporter score 1.5e-21 257310000755 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000756 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 257310000757 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 257310000758 Walker A/P-loop; other site 257310000759 ATP binding site [chemical binding]; other site 257310000760 Q-loop/lid; other site 257310000761 ABC transporter signature motif; other site 257310000762 Walker B; other site 257310000763 D-loop; other site 257310000764 H-loop/switch region; other site 257310000765 HMMPfam hit to PF00005, DE ABC transporter score 1.7e-41 257310000766 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000767 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 257310000768 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 257310000769 HMMPfam hit to PF01061, DE ABC-2 type transporter score 5e-99 257310000770 6 probable transmembrane helices predicted for BB0133 by TMHMM2.0 at aa 33-55, 75-97, 109-131, 146-168, 175-197 and 231-248 257310000771 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 257310000772 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 257310000773 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310000774 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 257310000775 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 257310000776 active site 257310000777 dimer interface [polypeptide binding]; other site 257310000778 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 257310000779 Ligand Binding Site [chemical binding]; other site 257310000780 Molecular Tunnel; other site 257310000781 PS00443 Glutamine amidotransferases class-II active site. 257310000782 HMMPfam hit to PF00310, DE Glutamine amidotransferases class-II, score 2.2e-29 257310000783 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000784 HMMPfam hit to PF00733, DE Asparagine synthase, score 3.2e-132 257310000785 Bordetella bronchiseptica enzymes WbmH and WbmG-like, extended (e) SDRs; Region: WbmH_like_SDR_e; cd08957 257310000786 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 257310000787 NAD binding site [chemical binding]; other site 257310000788 homodimer interface [polypeptide binding]; other site 257310000789 active site 257310000790 putative substrate binding site [chemical binding]; other site 257310000791 HMMPfam hit to PF01370, DE NAD dependent epimerase/dehydratase family, score 1.4e-15 257310000792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310000793 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 257310000794 NAD(P) binding site [chemical binding]; other site 257310000795 active site 257310000796 HMMPfam hit to PF01370, DE NAD dependent epimerase/dehydratase family, score 5.4e-16 257310000797 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 257310000798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310000799 NAD(P) binding site [chemical binding]; other site 257310000800 active site 257310000801 HMMPfam hit to PF01370, DE NAD dependent epimerase/dehydratase family, score 3.5e-34 257310000802 Signal peptide predicted for BB0140 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.366 between residues 26 and 27; signal peptide 257310000803 Transglutaminase/protease-like homologues; Region: TGc; smart00460 257310000804 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 257310000805 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310000806 1 probable transmembrane helix predicted for BB0140 by TMHMM2.0 at aa 7-26 257310000807 1 probable transmembrane helix predicted for BB0141 by TMHMM2.0 at aa 44-66 257310000808 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 257310000809 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 257310000810 active site 257310000811 dimer interface [polypeptide binding]; other site 257310000812 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 257310000813 Ligand Binding Site [chemical binding]; other site 257310000814 Molecular Tunnel; other site 257310000815 HMMPfam hit to PF00733, DE Asparagine synthase, score 6.9e-12 257310000816 PS00626 Regulator of chromosome condensation (RCC1) signature 2. 257310000817 HMMPfam hit to PF00310, DE Glutamine amidotransferases class-II, score 1.4e-19 257310000818 PS00443 Glutamine amidotransferases class-II active site. 257310000819 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 257310000820 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310000821 This family is most closely related to the GT1 family of glycosyltransferases. AmsK is involved in the biosynthesis of amylovoran, which functions as a virulence factor. It functions as a glycosyl transferase which transfers galactose from UDP-galactose...; Region: GT1_AmsK_like; cd04946 257310000822 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 3.4e-10 257310000823 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310000824 Lipopolysaccharide biosynthesis locus 257310000825 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 257310000826 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 257310000827 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 257310000828 NAD(P) binding site [chemical binding]; other site 257310000829 homodimer interface [polypeptide binding]; other site 257310000830 substrate binding site [chemical binding]; other site 257310000831 active site 257310000832 HMMPfam hit to PF02719, DE Polysaccharide biosynthesis protein, score 0 257310000833 PS00135 Serine proteases, trypsin family, serine active site. 257310000834 5 probable transmembrane helices predicted for BB0145 by TMHMM2.0 at aa 21-40, 55-77, 84-106, 110-132 and 152-171 257310000835 10 probable transmembrane helices predicted for BB0146 by TMHMM2.0 at aa 13-35, 47-66, 71-93, 100-122, 137-159, 182-199, 209-231, 306-325, 335-357 and 364-386 257310000836 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 257310000837 6 probable transmembrane helices predicted for BB0147 by TMHMM2.0 at aa 4-26, 47-65, 78-100, 136-158, 168-190 and 211-233 257310000838 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 257310000839 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310000840 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 3.7e-49 257310000841 Signal peptide predicted for BB0149 by SignalP 2.0 HMM (Signal peptide probabilty 0.991) with cleavage site probability 0.704 between residues 28 and 29; signal peptide 257310000842 Bacterial sugar transferase; Region: Bac_transf; pfam02397 257310000843 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02397, DE Bacterial sugar transferase, score 5.3e-15 257310000844 1 probable transmembrane helix predicted for BB0149 by TMHMM2.0 at aa 7-29 257310000845 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 257310000846 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 257310000847 inhibitor-cofactor binding pocket; inhibition site 257310000848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310000849 catalytic residue [active] 257310000850 HMMPfam hit to PF01041, DE DegT/DnrJ/EryC1/StrS aminotransferase family, score 2.8e-201 257310000851 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310000852 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 257310000853 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 2.6e-05 257310000854 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 257310000855 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 257310000856 homodimer interface [polypeptide binding]; other site 257310000857 active site 257310000858 HMMPfam hit to PF02350, DE UDP-N-acetylglucosamine 2-epimerase, score 1.2e-185 257310000859 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 257310000860 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 257310000861 inhibitor-cofactor binding pocket; inhibition site 257310000862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310000863 catalytic residue [active] 257310000864 HMMPfam hit to PF01041, DE DegT/DnrJ/EryC1/StrS aminotransferase family, score 4.1e-180 257310000865 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 257310000866 putative CoA binding site [chemical binding]; other site 257310000867 putative trimer interface [polypeptide binding]; other site 257310000868 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 257310000869 putative trimer interface [polypeptide binding]; other site 257310000870 putative active site [active] 257310000871 putative substrate binding site [chemical binding]; other site 257310000872 putative CoA binding site [chemical binding]; other site 257310000873 PS00572 Glycosyl hydrolases family 1 active site. 257310000874 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 0.47 257310000875 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 0.55 257310000876 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 0.14 257310000877 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 0.25 257310000878 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 257310000879 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 257310000880 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 257310000881 HMMPfam hit to PF02894, DE Oxidoreductase family, C-terminal alpha/beta domain, score 1.2e-28 257310000882 HMMPfam hit to PF01408, DE Oxidoreductase family, NAD-binding Rossmann fold, score 7.9e-46 257310000883 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 257310000884 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 257310000885 putative active site [active] 257310000886 HMMPfam hit to PF01075, DE Glycosyltransferase family 9 (heptosyltransferase), score 5.9e-110 257310000887 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 257310000888 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 257310000889 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 257310000890 Signal peptide predicted for BB0158 by SignalP 2.0 HMM (Signal peptide probabilty 0.958) with cleavage site probability 0.510 between residues 23 and 24; signal peptide 257310000891 Signal peptide predicted for BB0159 by SignalP 2.0 HMM (Signal peptide probabilty 0.879) with cleavage site probability 0.698 between residues 19 and 20; signal peptide 257310000892 1 probable transmembrane helix predicted for BB0159 by TMHMM2.0 at aa 3-25 257310000893 pantothenate kinase; Reviewed; Region: PRK13328 257310000894 HMMPfam hit to PF03309, DE Bordetella pertussis Bvg accessory factor family, score 3.3e-83 257310000895 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 257310000896 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 257310000897 HMMPfam hit to PF02237, DE Biotin protein ligase C terminal domain, score 2.8e-15 257310000898 HMMPfam hit to PF03099, DE Biotin/lipoate A/B protein ligase family, score 2e-29 257310000899 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310000900 Signal peptide predicted for BB0163 by SignalP 2.0 HMM (Signal peptide probabilty 0.737) with cleavage site probability 0.723 between residues 36 and 37; signal peptide 257310000901 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 257310000902 Permease; Region: Permease; pfam02405 257310000903 HMMPfam hit to PF02405, DE Domain of unknown function DUF140, score 2.2e-58 257310000904 4 probable transmembrane helices predicted for BB0163 by TMHMM2.0 at aa 170-192, 274-296, 316-338 and 351-373 257310000905 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 257310000906 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 257310000907 Walker A/P-loop; other site 257310000908 ATP binding site [chemical binding]; other site 257310000909 Q-loop/lid; other site 257310000910 ABC transporter signature motif; other site 257310000911 Walker B; other site 257310000912 D-loop; other site 257310000913 H-loop/switch region; other site 257310000914 HMMPfam hit to PF00005, DE ABC transporter score 3.8e-57 257310000915 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000916 PS00216 Sugar transport proteins signature 1. 257310000917 Signal peptide predicted for BB0165 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.352 between residues 25 and 26; signal peptide 257310000918 mce related protein; Region: MCE; pfam02470 257310000919 HMMPfam hit to PF02470, DE mce related protein, score 0.00031 257310000920 Signal peptide predicted for BB0166 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.988 between residues 24 and 25; signal peptide 257310000921 Protein of unknown function (DUF330); Region: DUF330; cl01135 257310000922 1 probable transmembrane helix predicted for BB0166 by TMHMM2.0 at aa 7-26 257310000923 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310000924 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 257310000925 Signal peptide predicted for BB0168 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.908 between residues 36 and 37; signal peptide 257310000926 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 257310000927 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 257310000928 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 257310000929 HMMPfam hit to PF00768, DE D-alanyl-D-alanine carboxypeptidase, score 4.2e-110 257310000930 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 257310000931 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 257310000932 homodimer interface [polypeptide binding]; other site 257310000933 substrate-cofactor binding pocket; other site 257310000934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310000935 catalytic residue [active] 257310000936 HMMPfam hit to PF01063, DE Aminotransferase class IV, score 7.7e-53 257310000937 hypothetical protein; Provisional; Region: PRK02047 257310000938 lipoate-protein ligase B; Provisional; Region: PRK14349 257310000939 HMMPfam hit to PF03099, DE Biotin/lipoate A/B protein ligase family, score 1.5e-31 257310000940 PS01313 Lipoate-protein ligase B signature. 257310000941 lipoyl synthase; Provisional; Region: PRK05481 257310000942 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 257310000943 FeS/SAM binding site; other site 257310000944 HMMPfam hit to PF02546, , score 1.1e-175 257310000945 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 257310000946 HMMPfam hit to PF00908, DE dTDP-4-dehydrorhamnose 3,5-epimerase, score 2.6e-106 257310000947 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 257310000948 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 257310000949 NADP binding site [chemical binding]; other site 257310000950 active site 257310000951 putative substrate binding site [chemical binding]; other site 257310000952 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 257310000953 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 257310000954 NAD binding site [chemical binding]; other site 257310000955 substrate binding site [chemical binding]; other site 257310000956 homodimer interface [polypeptide binding]; other site 257310000957 active site 257310000958 HMMPfam hit to PF01370, DE NAD dependent epimerase/dehydratase family, score 5.3e-160 257310000959 PS00061 Short-chain dehydrogenases/reductases family signature. 257310000960 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 257310000961 HMMPfam hit to PF01923, DE Protein of unknown function DUF80, score 6.1e-62 257310000962 Signal peptide predicted for BB0177 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.982 between residues 29 and 30; signal peptide 257310000963 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 257310000964 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 257310000965 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310000966 Walker A motif; other site 257310000967 ATP binding site [chemical binding]; other site 257310000968 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 257310000969 Walker B motif; other site 257310000970 arginine finger; other site 257310000971 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 257310000972 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 9.8e-06 257310000973 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000974 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 257310000975 active site 257310000976 HslU subunit interaction site [polypeptide binding]; other site 257310000977 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 257310000978 HMMPfam hit to PF01258, DE Prokaryotic dksA/traR C4-type zinc finger, score 5.4e-09 257310000979 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 257310000980 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 257310000981 P-loop, Walker A motif; other site 257310000982 Base recognition motif; other site 257310000983 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 257310000984 This hit extended beyond the end of the feature by 1 aa and was clipped.; PS00294 Prenyl group binding site (CAAX box). 257310000985 HMMPfam hit to PF02492, DE Cobalamin synthesis protein/P47K, score 3.4e-133 257310000986 PS00017 ATP/GTP-binding site motif A (P-loop). 257310000987 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 257310000988 metal binding site 2 [ion binding]; metal-binding site 257310000989 putative DNA binding helix; other site 257310000990 metal binding site 1 [ion binding]; metal-binding site 257310000991 dimer interface [polypeptide binding]; other site 257310000992 structural Zn2+ binding site [ion binding]; other site 257310000993 HMMPfam hit to PF01475, DE Ferric uptake regulator family, score 1.6e-11 257310000994 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 257310000995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310000996 Walker A/P-loop; other site 257310000997 ATP binding site [chemical binding]; other site 257310000998 Q-loop/lid; other site 257310000999 ABC transporter signature motif; other site 257310001000 Walker B; other site 257310001001 D-loop; other site 257310001002 H-loop/switch region; other site 257310001003 HMMPfam hit to PF00005, DE ABC transporter score 5.7e-46 257310001004 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001005 PS00211 ABC transporters family signature. 257310001006 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 257310001007 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 257310001008 HMMPfam hit to PF00950, DE ABC 3 transport family, score 5.3e-43 257310001009 8 probable transmembrane helices predicted for BB0184 by TMHMM2.0 at aa 21-40, 68-90, 102-121, 141-163, 175-197, 201-223, 230-252 and 257-279 257310001010 Signal peptide predicted for BB0185 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.799 between residues 21 and 22; signal peptide 257310001011 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 257310001012 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 257310001013 metal binding site [ion binding]; metal-binding site 257310001014 HMMPfam hit to PF01297, DE Periplasmic solute binding protein family, score 2.1e-92 257310001015 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 257310001016 Signal peptide predicted for BB0188 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.993 between residues 24 and 25; signal peptide 257310001017 High-affinity nickel-transport protein; Region: NicO; cl00964 257310001018 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310001019 7 probable transmembrane helices predicted for BB0188 by TMHMM2.0 at aa 7-24, 72-94, 115-137, 152-170, 226-248, 253-275 and 298-320 257310001020 Signal peptide predicted for BB0189 by SignalP 2.0 HMM (Signal peptide probabilty 0.768) with cleavage site probability 0.707 between residues 43 and 44; signal peptide 257310001021 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 257310001022 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 257310001023 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 257310001024 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 257310001025 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 257310001026 active site 257310001027 DNA binding site [nucleotide binding] 257310001028 Int/Topo IB signature motif; other site 257310001029 HMMPfam hit to PF00589, DE Phage integrase family, score 6.4e-33 257310001030 HMMPfam hit to PF02899, DE Phage integrase, N-terminal SAM-like domain, score 4.2e-18 257310001031 Protein of unknown function, DUF484; Region: DUF484; cl17449 257310001032 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 257310001033 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 257310001034 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 257310001035 HMMPfam hit to PF01678, DE Diaminopimelate epimerase, score 1.9e-37 257310001036 HMMPfam hit to PF01678, DE Diaminopimelate epimerase, score 1.4e-38 257310001037 PS01326 Diaminopimelate epimerase signature. 257310001038 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 257310001039 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 257310001040 putative acyl-acceptor binding pocket; other site 257310001041 HMMPfam hit to PF03279, DE Bacterial lipid A biosynthesis acyltransferase, score 2e-59 257310001042 Signal peptide predicted for BB0194 by SignalP 2.0 HMM (Signal peptide probabilty 0.922) with cleavage site probability 0.902 between residues 19 and 20; signal peptide 257310001043 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 257310001044 putative acyl-acceptor binding pocket; other site 257310001045 HMMPfam hit to PF03279, DE Bacterial lipid A biosynthesis acyltransferase, score 5e-18 257310001046 S-adenosylmethionine synthetase; Validated; Region: PRK05250 257310001047 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 257310001048 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 257310001049 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 257310001050 HMMPfam hit to PF00438, DE S-adenosylmethionine synthetase, N-terminal domain, score 6.5e-53 257310001051 HMMPfam hit to PF02772, DE S-adenosylmethionine synthetase, central domain, score 3.1e-71 257310001052 PS00376 S-adenosylmethionine synthetase signature 1. 257310001053 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02773, DE S-adenosylmethionine synthetase, C-terminal domain, score 1e-81 257310001054 PS00377 S-adenosylmethionine synthetase signature 2. 257310001055 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 257310001056 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310001057 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 257310001058 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 1e-13 257310001059 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 257310001060 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 257310001061 homotetramer interface [polypeptide binding]; other site 257310001062 ligand binding site [chemical binding]; other site 257310001063 catalytic site [active] 257310001064 NAD binding site [chemical binding]; other site 257310001065 HMMPfam hit to PF00670, DE S-adenosyl-L-homocysteine hydrolase, score 0 257310001066 PS00738 S-adenosyl-L-homocysteine hydrolase signature 1. 257310001067 PS00739 S-adenosyl-L-homocysteine hydrolase signature 2. 257310001068 Signal peptide predicted for BB0199 by SignalP 2.0 HMM (Signal peptide probabilty 0.984) with cleavage site probability 0.467 between residues 35 and 36; signal peptide 257310001069 4 probable transmembrane helices predicted for BB0199 by TMHMM2.0 at aa 4-26, 33-55, 59-81 and 88-110 257310001070 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 257310001071 FAD binding site [chemical binding]; other site 257310001072 HMMPfam hit to PF02219, DE Methylenetetrahydrofolate reductase, score 1.4e-95 257310001073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310001074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310001075 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310001076 dimerization interface [polypeptide binding]; other site 257310001077 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2e-30 257310001078 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3e-19 257310001079 PS00044 Bacterial regulatory proteins, lysR family signature. 257310001080 Predicted helix-turn-helix motif with score 1429.000, SD 4.05 at aa 34-55, sequence RGVGRAATALHLSQPAVSQALK 257310001081 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 257310001082 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 257310001083 active site 257310001084 Zn binding site [ion binding]; other site 257310001085 HMMPfam hit to PF00850, DE Histone deacetylase family, score 1.9e-55 257310001086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310001087 metabolite-proton symporter; Region: 2A0106; TIGR00883 257310001088 putative substrate translocation pore; other site 257310001089 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 3.7e-29 257310001090 12 probable transmembrane helices predicted for BB0203 by TMHMM2.0 at aa 28-50, 65-87, 99-121, 131-153, 166-185, 200-222, 261-283, 298-320, 329-346, 356-378, 391-413 and 423-445 257310001091 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 257310001092 HMMPfam hit to PF01812, DE 5-formyltetrahydrofolate cyclo-ligase family, score 1.4e-26 257310001093 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 257310001094 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 257310001095 N-acetyl-D-glucosamine binding site [chemical binding]; other site 257310001096 catalytic residue [active] 257310001097 HMMPfam hit to PF01464, DE Transglycosylase SLT domain, score 1.3e-19 257310001098 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13297 257310001099 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 257310001100 active site 257310001101 NTP binding site [chemical binding]; other site 257310001102 metal binding triad [ion binding]; metal-binding site 257310001103 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 257310001104 HMMPfam hit to PF01743, DE Poly A polymerase family, score 7.9e-34 257310001105 Uncharacterized conserved protein [Function unknown]; Region: COG1565 257310001106 HMMPfam hit to PF02636, DE Uncharacterized ACR, COG1565, score 2.9e-34 257310001107 Signal peptide predicted for BB0209 by SignalP 2.0 HMM (Signal peptide probabilty 0.742) with cleavage site probability 0.697 between residues 41 and 42; signal peptide 257310001108 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 257310001109 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 257310001110 ATP binding site [chemical binding]; other site 257310001111 Mg++ binding site [ion binding]; other site 257310001112 motif III; other site 257310001113 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 257310001114 nucleotide binding region [chemical binding]; other site 257310001115 ATP-binding site [chemical binding]; other site 257310001116 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 1.8e-30 257310001117 HMMPfam hit to PF00270, DE DEAD/DEAH box helicase, score 1.7e-75 257310001118 PS00039 DEAD-box subfamily ATP-dependent helicases signature. 257310001119 Signal peptide predicted for BB0210 by SignalP 2.0 HMM (Signal peptide probabilty 0.948) with cleavage site probability 0.451 between residues 18 and 19; signal peptide 257310001120 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 257310001121 ligand binding site [chemical binding]; other site 257310001122 active site 257310001123 UGI interface [polypeptide binding]; other site 257310001124 catalytic site [active] 257310001125 HMMPfam hit to PF03167, DE Uracil DNA glycosylase superfamily, score 8.6e-60 257310001126 PS00130 Uracil-DNA glycosylase signature. 257310001127 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 257310001128 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310001129 motif II; other site 257310001130 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 8.9e-24 257310001131 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 257310001132 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 257310001133 HMMPfam hit to PF01048, DE Phosphorylase family, score 1.6e-33 257310001134 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 257310001135 PS00028 Zinc finger, C2H2 type, domain. 257310001136 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257310001137 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310001138 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 3.2e-09 257310001139 PS00041 Bacterial regulatory proteins, araC family signature. 257310001140 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 3.2e-05 257310001141 Predicted helix-turn-helix motif with score 1527.000, SD 4.39 at aa 174-195, sequence SSIETWAERLNMSARTLMRRFR 257310001142 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 257310001143 metal binding site 2 [ion binding]; metal-binding site 257310001144 putative DNA binding helix; other site 257310001145 metal binding site 1 [ion binding]; metal-binding site 257310001146 dimer interface [polypeptide binding]; other site 257310001147 structural Zn2+ binding site [ion binding]; other site 257310001148 HMMPfam hit to PF01475, DE Ferric uptake regulator family, score 1.5e-41 257310001149 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 257310001150 11 probable transmembrane helices predicted for BB0217 by TMHMM2.0 at aa 5-27, 42-60, 77-99, 109-131, 138-160, 164-186, 198-220, 243-265, 278-300, 315-337 and 350-372 257310001151 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 257310001152 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310001153 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 1.9e-47 257310001154 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 257310001155 nucleotide binding site/active site [active] 257310001156 HIT family signature motif; other site 257310001157 catalytic residue [active] 257310001158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310001159 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 257310001160 Coenzyme A binding pocket [chemical binding]; other site 257310001161 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 5.9e-15 257310001162 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 257310001163 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 257310001164 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 257310001165 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03976, DE Domain of unknown function (DUF344), score 7.8e-94 257310001166 HMMPfam hit to PF03976, DE Domain of unknown function (DUF344), score 2.9e-18 257310001167 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 257310001168 HMMPfam hit to PF00753, DE Metallo-beta-lactamase superfamily, score 5.2e-18 257310001169 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310001170 putative DNA binding site [nucleotide binding]; other site 257310001171 putative Zn2+ binding site [ion binding]; other site 257310001172 HMMPfam hit to PF01022, DE Bacterial regulatory protein, arsR family, score 1e-17 257310001173 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 257310001174 4 probable transmembrane helices predicted for BB0225 by TMHMM2.0 at aa 15-37, 50-67, 77-99 and 120-142 257310001175 Signal peptide predicted for BB0226 by SignalP 2.0 HMM (Signal peptide probabilty 0.956) with cleavage site probability 0.875 between residues 23 and 24; signal peptide 257310001176 4 probable transmembrane helices predicted for BB0226 by TMHMM2.0 at aa 5-22, 37-59, 84-106 and 111-133 257310001177 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 257310001178 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310001179 acyl-activating enzyme (AAE) consensus motif; other site 257310001180 active site 257310001181 AMP binding site [chemical binding]; other site 257310001182 CoA binding site [chemical binding]; other site 257310001183 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310001184 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310001185 Walker A/P-loop; other site 257310001186 ATP binding site [chemical binding]; other site 257310001187 Q-loop/lid; other site 257310001188 ABC transporter signature motif; other site 257310001189 Walker B; other site 257310001190 D-loop; other site 257310001191 H-loop/switch region; other site 257310001192 HMMPfam hit to PF00005, DE ABC transporter score 1.6e-33 257310001193 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001194 Signal peptide predicted for BB0229 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 30 and 31; signal peptide 257310001195 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 257310001196 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310001197 putative ligand binding site [chemical binding]; other site 257310001198 1 probable transmembrane helix predicted for BB0229 by TMHMM2.0 at aa 7-29 257310001199 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310001200 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310001201 TM-ABC transporter signature motif; other site 257310001202 9 probable transmembrane helices predicted for BB0230 by TMHMM2.0 at aa 27-44, 48-70, 77-96, 101-123, 130-149, 182-204, 233-255, 270-292 and 320-342 257310001203 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 9.6e-08 257310001204 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310001205 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310001206 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310001207 TM-ABC transporter signature motif; other site 257310001208 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 5.4e-11 257310001209 8 probable transmembrane helices predicted for BB0231 by TMHMM2.0 at aa 10-29, 34-51, 66-88, 101-123, 157-179, 200-222, 242-264 and 271-293 257310001210 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310001211 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310001212 Walker A/P-loop; other site 257310001213 ATP binding site [chemical binding]; other site 257310001214 Q-loop/lid; other site 257310001215 ABC transporter signature motif; other site 257310001216 Walker B; other site 257310001217 D-loop; other site 257310001218 H-loop/switch region; other site 257310001219 HMMPfam hit to PF00005, DE ABC transporter score 3.2e-45 257310001220 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001221 Signal peptide predicted for BB0233 by SignalP 2.0 HMM (Signal peptide probabilty 0.809) with cleavage site probability 0.746 between residues 15 and 16; signal peptide 257310001222 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 257310001223 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310001224 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 257310001225 acyl-activating enzyme (AAE) consensus motif; other site 257310001226 putative AMP binding site [chemical binding]; other site 257310001227 putative active site [active] 257310001228 putative CoA binding site [chemical binding]; other site 257310001229 HMMPfam hit to PF00501, DE AMP-binding protein, score 6.3e-81 257310001230 PS00455 AMP-binding domain signature. 257310001231 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310001232 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 257310001233 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 257310001234 ligand binding site [chemical binding]; other site 257310001235 flexible hinge region; other site 257310001236 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 257310001237 HMMPfam hit to PF00027, DE Cyclic nucleotide-binding domain, score 5.6e-10 257310001238 Predicted helix-turn-helix motif with score 1258.000, SD 3.47 at aa 175-196, sequence ITQEEVGYLARVSRQRANQALR 257310001239 Signal peptide predicted for BB0235 by SignalP 2.0 HMM (Signal peptide probabilty 0.835) with cleavage site probability 0.262 between residues 29 and 30; signal peptide 257310001240 LysE type translocator; Region: LysE; cl00565 257310001241 6 probable transmembrane helices predicted for BB0235 by TMHMM2.0 at aa 10-32, 44-66, 71-93, 113-135, 150-172 and 185-207 257310001242 HMMPfam hit to PF01810, DE LysE type translocator, score 8.1e-18 257310001243 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 257310001244 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310001245 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310001246 dimerization interface [polypeptide binding]; other site 257310001247 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.1e-13 257310001248 Predicted helix-turn-helix motif with score 1673.000, SD 4.89 at aa 18-39, sequence GSFERAAAALSVTPSAVSQRVK 257310001249 PS00044 Bacterial regulatory proteins, lysR family signature. 257310001250 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 0.00064 257310001251 Signal peptide predicted for BB0237 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 22 and 23; signal peptide 257310001252 Protein of unknown function (DUF461); Region: DUF461; pfam04314 257310001253 Signal peptide predicted for BB0238 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.898 between residues 22 and 23; signal peptide 257310001254 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310001255 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.5e-92 257310001256 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 257310001257 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 257310001258 catalytic residue [active] 257310001259 HMMPfam hit to PF01168, DE Uncharacterized protein family UPF0001, score 2e-58 257310001260 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310001261 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 257310001262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310001263 homodimer interface [polypeptide binding]; other site 257310001264 catalytic residue [active] 257310001265 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 3.9e-08 257310001266 Signal peptide predicted for BB0241 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.790 between residues 22 and 23; signal peptide 257310001267 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 257310001268 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310001269 substrate binding pocket [chemical binding]; other site 257310001270 membrane-bound complex binding site; other site 257310001271 hinge residues; other site 257310001272 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 1.9e-33 257310001273 PS01039 Bacterial extracellular substrate-binding proteins, family 3 signature. 257310001274 PS00659 Glycosyl hydrolases family 5 signature. 257310001275 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 257310001276 2 probable transmembrane helices predicted for BB0242 by TMHMM2.0 at aa 33-55 and 59-81 257310001277 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 257310001278 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 257310001279 active site 257310001280 catalytic residues [active] 257310001281 metal binding site [ion binding]; metal-binding site 257310001282 HMMPfam hit to PF00682, DE HMGL-like, score 1.1e-74 257310001283 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 257310001284 DNA protecting protein DprA; Region: dprA; TIGR00732 257310001285 HMMPfam hit to PF02481, DE SMF family, score 5.8e-96 257310001286 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310001287 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310001288 putative DNA binding site [nucleotide binding]; other site 257310001289 putative Zn2+ binding site [ion binding]; other site 257310001290 AsnC family; Region: AsnC_trans_reg; pfam01037 257310001291 HMMPfam hit to PF01037, DE AsnC family, score 5.1e-30 257310001292 PS00519 Bacterial regulatory proteins, asnC family signature. 257310001293 Predicted helix-turn-helix motif with score 1211.000, SD 3.31 at aa 36-57, sequence LSNQDLADRVALSPSACLRRVR 257310001294 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 257310001295 kynureninase; Region: kynureninase; TIGR01814 257310001296 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310001297 catalytic residue [active] 257310001298 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310001299 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 257310001300 active site 257310001301 catalytic residues [active] 257310001302 metal binding site [ion binding]; metal-binding site 257310001303 HMMPfam hit to PF01327, DE Polypeptide deformylase, score 1.7e-70 257310001304 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 257310001305 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 257310001306 putative active site [active] 257310001307 substrate binding site [chemical binding]; other site 257310001308 putative cosubstrate binding site; other site 257310001309 catalytic site [active] 257310001310 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 257310001311 substrate binding site [chemical binding]; other site 257310001312 HMMPfam hit to PF00551, DE Formyl transferase, score 1.4e-52 257310001313 HMMPfam hit to PF02911, DE Formyl transferase, C-terminal domain, score 2.6e-25 257310001314 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 257310001315 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 257310001316 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310001317 motif II; other site 257310001318 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 1.7e-21 257310001319 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 257310001320 HMMPfam hit to PF03641, DE Lysine decarboxylase family, score 1.5e-59 257310001321 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 257310001322 Ferritin-like domain; Region: Ferritin; pfam00210 257310001323 dinuclear metal binding motif [ion binding]; other site 257310001324 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00210, DE Ferritin-like domain, score 8.3e-19 257310001325 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 257310001326 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 257310001327 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 257310001328 FeS/SAM binding site; other site 257310001329 PS01278 Uncharacterized protein family UPF0004 signature. 257310001330 HMMPfam hit to PF00919, DE Uncharacterized protein family UPF0004, score 8.1e-34 257310001331 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 257310001332 active site 1 [active] 257310001333 dimer interface [polypeptide binding]; other site 257310001334 hexamer interface [polypeptide binding]; other site 257310001335 active site 2 [active] 257310001336 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 257310001337 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310001338 Signal peptide predicted for BB0257 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 30 and 31; signal peptide 257310001339 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310001340 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.4e-85 257310001341 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310001342 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310001343 DNA-binding site [nucleotide binding]; DNA binding site 257310001344 FCD domain; Region: FCD; pfam07729 257310001345 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.3e-05 257310001346 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 257310001347 L-aspartate dehydrogenase; Provisional; Region: PRK13303 257310001348 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 257310001349 Domain of unknown function DUF108; Region: DUF108; pfam01958 257310001350 PS00443 Glutamine amidotransferases class-II active site. 257310001351 HMMPfam hit to PF01958, DE Domain of unknown function DUF108, score 3.5e-32 257310001352 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 257310001353 Signal peptide predicted for BB0261 by SignalP 2.0 HMM (Signal peptide probabilty 0.963) with cleavage site probability 0.729 between residues 27 and 28; signal peptide 257310001354 5 probable transmembrane helices predicted for BB0261 by TMHMM2.0 at aa 7-29, 44-66, 114-136, 151-173 and 186-205 257310001355 HMMPfam hit to PF01810, DE LysE type translocator, score 3.3e-11 257310001356 Signal peptide predicted for BB0262 by SignalP 2.0 HMM (Signal peptide probabilty 0.949) with cleavage site probability 0.301 between residues 24 and 25; signal peptide 257310001357 16S rRNA methyltransferase B; Provisional; Region: PRK10901 257310001358 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 257310001359 HMMPfam hit to PF01189, DE NOL1/NOP2/sun family, score 6.3e-64 257310001360 PS01153 NOL1/NOP2/sun family signature. 257310001361 Signal peptide predicted for BB0263 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 35 and 36; signal peptide 257310001362 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 257310001363 Signal peptide predicted for BB0264 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.360 between residues 30 and 31; signal peptide 257310001364 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 257310001365 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310001366 dimerization interface [polypeptide binding]; other site 257310001367 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310001368 dimer interface [polypeptide binding]; other site 257310001369 phosphorylation site [posttranslational modification] 257310001370 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310001371 ATP binding site [chemical binding]; other site 257310001372 Mg2+ binding site [ion binding]; other site 257310001373 G-X-G motif; other site 257310001374 4 probable transmembrane helices predicted for BB0264 by TMHMM2.0 at aa 7-26, 36-58, 79-101 and 292-314 257310001375 HMMPfam hit to PF00672, DE HAMP domain, score 1.3e-12 257310001376 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 1.6e-08 257310001377 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 5e-35 257310001378 Response regulator receiver domain; Region: Response_reg; pfam00072 257310001379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310001380 active site 257310001381 phosphorylation site [posttranslational modification] 257310001382 intermolecular recognition site; other site 257310001383 dimerization interface [polypeptide binding]; other site 257310001384 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.9e-34 257310001385 Predicted helix-turn-helix motif with score 1397.000, SD 3.94 at aa 196-217, sequence HSMTRVSERTGLERTHLYRKLK 257310001386 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 257310001387 TrkA-N domain; Region: TrkA_N; pfam02254 257310001388 TrkA-C domain; Region: TrkA_C; pfam02080 257310001389 TrkA-N domain; Region: TrkA_N; pfam02254 257310001390 TrkA-C domain; Region: TrkA_C; pfam02080 257310001391 HMMPfam hit to PF02254, DE TrkA-N domain, score 3e-22 257310001392 HMMPfam hit to PF02080, DE TrkA-C domain, score 0.0001 257310001393 HMMPfam hit to PF02254, DE TrkA-N domain, score 2.5e-27 257310001394 HMMPfam hit to PF02080, DE TrkA-C domain, score 3.9e-11 257310001395 Signal peptide predicted for BB0267 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.611 between residues 29 and 30; signal peptide 257310001396 Cation transport protein; Region: TrkH; cl17365 257310001397 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 257310001398 10 probable transmembrane helices predicted for BB0267 by TMHMM2.0 at aa 9-31, 35-57, 70-92, 137-159, 190-212, 239-261, 281-303, 336-358, 399-421 and 465-487 257310001399 HMMPfam hit to PF02386, DE Cation transport protein, score 7.3e-79 257310001400 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 257310001401 MarR family; Region: MarR_2; pfam12802 257310001402 HMMPfam hit to PF01047, DE MarR family, score 5.2e-20 257310001403 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 257310001404 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 257310001405 XdhC Rossmann domain; Region: XdhC_C; pfam13478 257310001406 HMMPfam hit to PF02625, DE Uncharacterized BCR, COG1975, score 1.2e-33 257310001407 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310001408 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 257310001409 Ligand binding site; other site 257310001410 metal-binding site 257310001411 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 257310001412 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 257310001413 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310001414 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 2e-09 257310001415 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 257310001416 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 257310001417 Isochorismatase family; Region: Isochorismatase; pfam00857 257310001418 catalytic triad [active] 257310001419 conserved cis-peptide bond; other site 257310001420 HMMPfam hit to PF00857, DE Isochorismatase family, score 1.4e-07 257310001421 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310001422 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 257310001423 inter-subunit interface; other site 257310001424 HMMPfam hit to PF00866, DE Ring hydroxylating beta subunit, score 3.7e-06 257310001425 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 257310001426 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 257310001427 iron-sulfur cluster [ion binding]; other site 257310001428 [2Fe-2S] cluster binding site [ion binding]; other site 257310001429 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 257310001430 putative alpha subunit interface [polypeptide binding]; other site 257310001431 putative active site [active] 257310001432 putative substrate binding site [chemical binding]; other site 257310001433 Fe binding site [ion binding]; other site 257310001434 HMMPfam hit to PF00848, DE Ring hydroxylating alpha subunit (catalytic domain), score 0.00016 257310001435 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 1.7e-31 257310001436 PS00570 Bacterial ring hydroxylating dioxygenases alpha-subunit signature. 257310001437 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 257310001438 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310001439 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 9.4e-78 257310001440 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 257310001441 [2Fe-2S] cluster binding site [ion binding]; other site 257310001442 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 4.7e-22 257310001443 Signal peptide predicted for BB0280 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.666 between residues 27 and 28; signal peptide 257310001444 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 257310001445 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310001446 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 8.6e-65 257310001447 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 257310001448 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 257310001449 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310001450 HMMPfam hit to PF01315, DE Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain, score 4e-16 257310001451 HMMPfam hit to PF02738, DE Aldehyde oxidase and xanthine dehydrogenase, molybdopterin binding domain, score 1.1e-126 257310001452 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 257310001453 HMMPfam hit to PF00941, DE FAD binding domain in molybdopterin dehydrogenase, score 9.2e-27 257310001454 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 257310001455 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310001456 catalytic loop [active] 257310001457 iron binding site [ion binding]; other site 257310001458 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 257310001459 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 257310001460 putative hydrophobic ligand binding site [chemical binding]; other site 257310001461 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 7.2e-10 257310001462 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310001463 HMMPfam hit to PF01799, DE [2Fe-2S] binding domain, score 2.3e-23 257310001464 Signal peptide predicted for BB0284 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.641 between residues 30 and 31; signal peptide 257310001465 NMT1/THI5 like; Region: NMT1; pfam09084 257310001466 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 257310001467 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310001468 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310001469 Walker A/P-loop; other site 257310001470 ATP binding site [chemical binding]; other site 257310001471 Q-loop/lid; other site 257310001472 ABC transporter signature motif; other site 257310001473 Walker B; other site 257310001474 D-loop; other site 257310001475 H-loop/switch region; other site 257310001476 HMMPfam hit to PF00005, DE ABC transporter score 1e-46 257310001477 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001478 PS00211 ABC transporters family signature. 257310001479 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310001480 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310001481 5 probable transmembrane helices predicted for BB0286 by TMHMM2.0 at aa 7-29, 65-87, 94-116, 120-139 and 144-166 257310001482 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 257310001483 4 probable transmembrane helices predicted for BB0287 by TMHMM2.0 at aa 21-39, 54-71, 91-113 and 133-155 257310001484 Signal peptide predicted for BB0288 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.703 between residues 31 and 32; signal peptide 257310001485 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 257310001486 DctM-like transporters; Region: DctM; pfam06808 257310001487 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310001488 15 probable transmembrane helices predicted for BB0288 by TMHMM2.0 at aa 13-35, 59-81, 94-116, 121-143, 150-172, 182-204, 230-252, 262-284, 296-318, 322-344, 357-379, 394-413, 420-442, 452-469 and 490-512 257310001489 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 257310001490 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 257310001491 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 257310001492 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310001493 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 257310001494 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 257310001495 HMMPfam hit to PF00588, DE SpoU rRNA Methylase family, score 1.8e-36 257310001496 PS00449 ATP synthase a subunit signature. 257310001497 Signal peptide predicted for BB0293 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 31 and 32; signal peptide 257310001498 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310001499 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.2e-91 257310001500 Signal peptide predicted for BB0294 by SignalP 2.0 HMM (Signal peptide probabilty 0.991) with cleavage site probability 0.824 between residues 24 and 25; signal peptide 257310001501 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 257310001502 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 257310001503 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 257310001504 HMMPfam hit to PF01210, DE NAD-dependent glycerol-3-phosphate dehydrogenase, score 7.5e-108 257310001505 PS00957 NAD-dependent glycerol-3-phosphate dehydrogenase signature. 257310001506 preprotein translocase subunit SecB; Validated; Region: PRK05751 257310001507 SecA binding site; other site 257310001508 Preprotein binding site; other site 257310001509 HMMPfam hit to PF02556, DE Preprotein translocase subunit SecB, score 7.7e-33 257310001510 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 257310001511 GSH binding site [chemical binding]; other site 257310001512 catalytic residues [active] 257310001513 HMMPfam hit to PF00462, DE Glutaredoxin, score 1.4e-14 257310001514 PS00194 Thioredoxin family active site. 257310001515 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 257310001516 active site residue [active] 257310001517 HMMPfam hit to PF00581, DE Rhodanese-like domain, score 5e-20 257310001518 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 257310001519 catalytic core [active] 257310001520 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 257310001521 HMMPfam hit to PF00300, DE Phosphoglycerate mutase family, score 2.5e-126 257310001522 PS00175 Phosphoglycerate mutase family phosphohistidine signature. 257310001523 Signal peptide predicted for BB0299 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 22 and 23; signal peptide 257310001524 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 257310001525 Peptidase family M23; Region: Peptidase_M23; pfam01551 257310001526 Predicted helix-turn-helix motif with score 980.000, SD 2.52 at aa 56-77, sequence AARKEAADALKESESAISRINL 257310001527 HMMPfam hit to PF01551, DE Peptidase family M23/M37, score 9.2e-25 257310001528 Signal peptide predicted for BB0300 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.474 between residues 30 and 31; signal peptide 257310001529 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 257310001530 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 257310001531 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 257310001532 protein binding site [polypeptide binding]; other site 257310001533 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 257310001534 Catalytic dyad [active] 257310001535 HMMPfam hit to PF00595, DE PDZ domain (Also known as DHR or GLGF), score 2e-16 257310001536 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 257310001537 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 257310001538 ATP binding site [chemical binding]; other site 257310001539 substrate interface [chemical binding]; other site 257310001540 HMMPfam hit to PF00899, DE ThiF family, score 9.8e-55 257310001541 Transcriptional regulators [Transcription]; Region: FadR; COG2186 257310001542 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310001543 DNA-binding site [nucleotide binding]; DNA binding site 257310001544 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 257310001545 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.5e-15 257310001546 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 257310001547 FAD binding domain; Region: FAD_binding_4; pfam01565 257310001548 HMMPfam hit to PF01565, DE FAD binding domain, score 9e-60 257310001549 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310001550 HMMPfam hit to PF02913, DE FAD linked oxidases, C-terminal domain, score 1.8e-59 257310001551 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 257310001552 ThiC-associated domain; Region: ThiC-associated; pfam13667 257310001553 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 257310001554 HMMPfam hit to PF01964, DE ThiC family, score 0 257310001555 Signal peptide predicted for BB0305 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.482 between residues 27 and 28; signal peptide 257310001556 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 257310001557 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310001558 HindIII restriction endonuclease; Region: RE_HindIII; pfam09518 257310001559 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 257310001560 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 257310001561 Methyltransferase domain; Region: Methyltransf_11; pfam08241 257310001562 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 257310001563 PS00092 N-6 Adenine-specific DNA methylases signature. 257310001564 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310001565 non-specific DNA binding site [nucleotide binding]; other site 257310001566 salt bridge; other site 257310001567 sequence-specific DNA binding site [nucleotide binding]; other site 257310001568 HMMPfam hit to PF01381, DE Helix-turn-helix, score 2.7e-10 257310001569 Predicted helix-turn-helix motif with score 1793.000, SD 5.29 at aa 10-31, sequence LSQENLAHISGLSQSAVASYEN 257310001570 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310001571 non-specific DNA binding site [nucleotide binding]; other site 257310001572 salt bridge; other site 257310001573 sequence-specific DNA binding site [nucleotide binding]; other site 257310001574 HMMPfam hit to PF01381, DE Helix-turn-helix, score 2.2e-13 257310001575 Predicted helix-turn-helix motif with score 2149.000, SD 6.51 at aa 17-38, sequence LTQQDLARASGLSQSAVASYEN 257310001576 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310001577 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 257310001578 DNA binding site [nucleotide binding] 257310001579 gamma-glutamyl kinase; Provisional; Region: PRK05429 257310001580 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 257310001581 nucleotide binding site [chemical binding]; other site 257310001582 homotetrameric interface [polypeptide binding]; other site 257310001583 putative phosphate binding site [ion binding]; other site 257310001584 putative allosteric binding site; other site 257310001585 PUA domain; Region: PUA; pfam01472 257310001586 HMMPfam hit to PF01472, DE PUA domain, score 5.6e-11 257310001587 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001588 HMMPfam hit to PF00696, DE Amino acid kinase family, score 7.2e-62 257310001589 PS00902 Glutamate 5-kinase signature. 257310001590 GTPase CgtA; Reviewed; Region: obgE; PRK12299 257310001591 GTP1/OBG; Region: GTP1_OBG; pfam01018 257310001592 Obg GTPase; Region: Obg; cd01898 257310001593 G1 box; other site 257310001594 GTP/Mg2+ binding site [chemical binding]; other site 257310001595 Switch I region; other site 257310001596 G2 box; other site 257310001597 G3 box; other site 257310001598 Switch II region; other site 257310001599 G4 box; other site 257310001600 G5 box; other site 257310001601 HMMPfam hit to PF01018, DE GTP1/OBG family, score 1.1e-111 257310001602 PS00905 GTP1/OBG family signature. 257310001603 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001604 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 257310001605 HMMPfam hit to PF01016, DE Ribosomal L27 protein, score 3.5e-49 257310001606 PS00831 Ribosomal protein L27 signature. 257310001607 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 257310001608 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 257310001609 HMMPfam hit to PF00829, DE Ribosomal prokaryotic L21 protein, score 4.4e-43 257310001610 PS01169 Ribosomal protein L21 signature. 257310001611 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 257310001612 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 257310001613 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 257310001614 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 257310001615 substrate binding pocket [chemical binding]; other site 257310001616 chain length determination region; other site 257310001617 substrate-Mg2+ binding site; other site 257310001618 catalytic residues [active] 257310001619 aspartate-rich region 1; other site 257310001620 active site lid residues [active] 257310001621 aspartate-rich region 2; other site 257310001622 HMMPfam hit to PF00348, DE Polyprenyl synthetase, score 1.1e-93 257310001623 PS00723 Polyprenyl synthetases signature 1. 257310001624 PS00444 Polyprenyl synthetases signature 2. 257310001625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310001626 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310001627 dimerization interface [polypeptide binding]; other site 257310001628 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.4e-36 257310001629 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 7.7e-12 257310001630 PS00044 Bacterial regulatory proteins, lysR family signature. 257310001631 Predicted helix-turn-helix motif with score 1682.000, SD 4.92 at aa 4-25, sequence RSMTQAAKDLHTTQPNVSRVIA 257310001632 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 257310001633 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 257310001634 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 257310001635 HMMPfam hit to PF01968, DE Hydantoinase/oxoprolinase, score 1.5e-148 257310001636 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 257310001637 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 257310001638 HMMPfam hit to PF02538, DE Hydantoinase B/oxoprolinase, score 7.4e-56 257310001639 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310001640 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310001641 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 257310001642 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 0.0022 257310001643 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001644 Signal peptide predicted for BB0321 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.909 between residues 48 and 49; signal peptide 257310001645 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310001646 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.1e-75 257310001647 succinic semialdehyde dehydrogenase; Region: PLN02278 257310001648 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 257310001649 tetramerization interface [polypeptide binding]; other site 257310001650 NAD(P) binding site [chemical binding]; other site 257310001651 catalytic residues [active] 257310001652 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 6.3e-196 257310001653 Predicted helix-turn-helix motif with score 975.000, SD 2.51 at aa 192-213, sequence LALTALAQQAGVPPGVLNIVTA 257310001654 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310001655 PS00070 Aldehyde dehydrogenases cysteine active site. 257310001656 RTX toxin acyltransferase family; Region: HlyC; pfam02794 257310001657 HMMPfam hit to PF02794, DE RTX toxin acyltransferase family, score 1.8e-116 257310001658 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 257310001659 RTX N-terminal domain; Region: RTX; pfam02382 257310001660 HMMPfam hit to PF03497, DE Anthrax toxin LF subunit, score 1e-37 257310001661 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001662 HMMPfam hit to PF02382, DE RTX N-terminal domain, score 3.7e-11 257310001663 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.014 257310001664 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.00066 257310001665 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.0099 257310001666 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.0061 257310001667 PS00330 Hemolysin-type calcium-binding region signature. 257310001668 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.0042 257310001669 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.24 257310001670 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.00015 257310001671 PS00330 Hemolysin-type calcium-binding region signature. 257310001672 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.00024 257310001673 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 56 257310001674 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 4.4 257310001675 PS00330 Hemolysin-type calcium-binding region signature. 257310001676 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.013 257310001677 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.00069 257310001678 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 18 257310001679 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.096 257310001680 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.014 257310001681 PS00330 Hemolysin-type calcium-binding region signature. 257310001682 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.034 257310001683 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.73 257310001684 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 257310001685 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 257310001686 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257310001687 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 257310001688 Walker A/P-loop; other site 257310001689 ATP binding site [chemical binding]; other site 257310001690 Q-loop/lid; other site 257310001691 ABC transporter signature motif; other site 257310001692 Walker B; other site 257310001693 D-loop; other site 257310001694 H-loop/switch region; other site 257310001695 HMMPfam hit to PF03412, DE Peptidase C39 family, score 4.9e-27 257310001696 HMMPfam hit to PF00664, DE ABC transporter transmembrane region, score 1.1e-58 257310001697 5 probable transmembrane helices predicted for BB0325 by TMHMM2.0 at aa 183-205, 220-242, 292-314, 319-341 and 388-410 257310001698 HMMPfam hit to PF00005, DE ABC transporter score 1.7e-64 257310001699 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001700 PS00211 ABC transporters family signature. 257310001701 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 257310001702 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257310001703 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310001704 HMMPfam hit to PF00529, DE hemolysin D, score 8.8e-39 257310001705 PS00543 hemolysin Ds signature. 257310001706 Signal peptide predicted for BB0327 by SignalP 2.0 HMM (Signal peptide probabilty 0.875) with cleavage site probability 0.716 between residues 31 and 32; signal peptide 257310001707 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 257310001708 1 probable transmembrane helix predicted for BB0327 by TMHMM2.0 at aa 12-31 257310001709 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 2.8e-46 257310001710 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 4.1e-50 257310001711 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310001712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310001713 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310001714 dimerization interface [polypeptide binding]; other site 257310001715 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.2e-16 257310001716 Predicted helix-turn-helix motif with score 1182.000, SD 3.21 at aa 19-40, sequence GQFTTAAELRHVSQSAFSRRIQ 257310001717 PS00044 Bacterial regulatory proteins, lysR family signature. 257310001718 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5.4e-17 257310001719 Signal peptide predicted for BB0329 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 24 and 25; signal peptide 257310001720 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310001721 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257310001722 substrate binding pocket [chemical binding]; other site 257310001723 membrane-bound complex binding site; other site 257310001724 hinge residues; other site 257310001725 PS00626 Regulator of chromosome condensation (RCC1) signature 2. 257310001726 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 1.4e-54 257310001727 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310001728 dimer interface [polypeptide binding]; other site 257310001729 conserved gate region; other site 257310001730 putative PBP binding loops; other site 257310001731 ABC-ATPase subunit interface; other site 257310001732 3 probable transmembrane helices predicted for BB0330 by TMHMM2.0 at aa 31-53, 66-88 and 203-225 257310001733 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.5e-12 257310001734 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310001735 Predicted helix-turn-helix motif with score 1075.000, SD 2.85 at aa 136-157, sequence PGQRQAGLALGLTLPQLYRHVL 257310001736 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 257310001737 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310001738 putative PBP binding loops; other site 257310001739 ABC-ATPase subunit interface; other site 257310001740 5 probable transmembrane helices predicted for BB0331 by TMHMM2.0 at aa 23-45, 66-88, 93-115, 157-179 and 199-218 257310001741 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.5e-14 257310001742 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310001743 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310001744 Walker A/P-loop; other site 257310001745 ATP binding site [chemical binding]; other site 257310001746 Q-loop/lid; other site 257310001747 ABC transporter signature motif; other site 257310001748 Walker B; other site 257310001749 D-loop; other site 257310001750 H-loop/switch region; other site 257310001751 HMMPfam hit to PF00005, DE ABC transporter score 6e-68 257310001752 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001753 PS00211 ABC transporters family signature. 257310001754 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 257310001755 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 257310001756 homodimer interface [polypeptide binding]; other site 257310001757 substrate-cofactor binding pocket; other site 257310001758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310001759 catalytic residue [active] 257310001760 HMMPfam hit to PF01063, DE Aminotransferase class IV, score 2.2e-50 257310001761 2 probable transmembrane helices predicted for BB0334 by TMHMM2.0 at aa 65-87 and 91-113 257310001762 Signal peptide predicted for BB0335 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.867 between residues 23 and 24; signal peptide 257310001763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310001764 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 5.9e-66 257310001765 Signal peptide predicted for BB0336 by SignalP 2.0 HMM (Signal peptide probabilty 0.671) with cleavage site probability 0.520 between residues 26 and 27; signal peptide 257310001766 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 257310001767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310001768 NAD(P) binding site [chemical binding]; other site 257310001769 active site 257310001770 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.1e-69 257310001771 Predicted helix-turn-helix motif with score 996.000, SD 2.58 at aa 103-124, sequence VSEEEWAQVLGINLTCVMRLCQ 257310001772 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 257310001773 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310001774 PYR/PP interface [polypeptide binding]; other site 257310001775 dimer interface [polypeptide binding]; other site 257310001776 TPP binding site [chemical binding]; other site 257310001777 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310001778 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 257310001779 TPP-binding site [chemical binding]; other site 257310001780 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 1.1e-37 257310001781 PS00187 Thiamine pyrophosphate enzymes signature. 257310001782 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 1e-31 257310001783 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 1.6e-30 257310001784 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310001785 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310001786 DNA-binding site [nucleotide binding]; DNA binding site 257310001787 FCD domain; Region: FCD; pfam07729 257310001788 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.2e-06 257310001789 Predicted helix-turn-helix motif with score 1003.000, SD 2.60 at aa 52-73, sequence LTLRMLTERLGVSQTPVREALL 257310001790 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310001791 HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 5.2e-29 257310001792 Transcriptional regulators [Transcription]; Region: FadR; COG2186 257310001793 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310001794 DNA-binding site [nucleotide binding]; DNA binding site 257310001795 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 257310001796 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 4.6e-09 257310001797 PS00043 Bacterial regulatory proteins, gntR family signature. 257310001798 Predicted helix-turn-helix motif with score 1086.000, SD 2.89 at aa 42-63, sequence LNEVALAERLGVSRTPVREALH 257310001799 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 257310001800 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 257310001801 NAD(P) binding site [chemical binding]; other site 257310001802 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 8.7e-85 257310001803 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 257310001804 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310001805 acyl-activating enzyme (AAE) consensus motif; other site 257310001806 AMP binding site [chemical binding]; other site 257310001807 active site 257310001808 CoA binding site [chemical binding]; other site 257310001809 HMMPfam hit to PF00501, DE AMP-binding protein, score 5.7e-108 257310001810 PS00455 AMP-binding domain signature. 257310001811 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 257310001812 putative active site [active] 257310001813 Zn binding site [ion binding]; other site 257310001814 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310001815 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310001816 dimer interface [polypeptide binding]; other site 257310001817 conserved gate region; other site 257310001818 putative PBP binding loops; other site 257310001819 ABC-ATPase subunit interface; other site 257310001820 6 probable transmembrane helices predicted for BB0345 by TMHMM2.0 at aa 7-29, 59-81, 93-115, 125-144, 177-199 and 219-241 257310001821 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310001822 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310001823 Walker A/P-loop; other site 257310001824 ATP binding site [chemical binding]; other site 257310001825 Q-loop/lid; other site 257310001826 ABC transporter signature motif; other site 257310001827 Walker B; other site 257310001828 D-loop; other site 257310001829 H-loop/switch region; other site 257310001830 HMMPfam hit to PF00005, DE ABC transporter score 9.5e-53 257310001831 PS00211 ABC transporters family signature. 257310001832 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001833 Signal peptide predicted for BB0347 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.992 between residues 33 and 34; signal peptide 257310001834 NMT1/THI5 like; Region: NMT1; pfam09084 257310001835 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 257310001836 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 257310001837 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 257310001838 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310001839 PYR/PP interface [polypeptide binding]; other site 257310001840 dimer interface [polypeptide binding]; other site 257310001841 TPP binding site [chemical binding]; other site 257310001842 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310001843 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 257310001844 TPP-binding site [chemical binding]; other site 257310001845 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 5.6e-40 257310001846 PS00187 Thiamine pyrophosphate enzymes signature. 257310001847 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 1.1e-24 257310001848 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 1.1e-45 257310001849 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 257310001850 Mechanosensitive ion channel; Region: MS_channel; pfam00924 257310001851 HMMPfam hit to PF00924, DE Mechanosensitive ion channel, score 4.3e-29 257310001852 4 probable transmembrane helices predicted for BB0350 by TMHMM2.0 at aa 2-21, 31-53, 66-88 and 92-114 257310001853 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 257310001854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310001855 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 257310001856 putative dimerization interface [polypeptide binding]; other site 257310001857 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.3e-33 257310001858 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.9e-23 257310001859 PS00044 Bacterial regulatory proteins, lysR family signature. 257310001860 Predicted helix-turn-helix motif with score 1510.000, SD 4.33 at aa 16-37, sequence GSLTKAAEQVRVAQPALSQQLA 257310001861 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310001862 Signal peptide predicted for BB0352 by SignalP 2.0 HMM (Signal peptide probabilty 0.720) with cleavage site probability 0.668 between residues 20 and 21; signal peptide 257310001863 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310001864 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 9.2e-48 257310001865 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 257310001866 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310001867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310001868 DNA-binding site [nucleotide binding]; DNA binding site 257310001869 UTRA domain; Region: UTRA; pfam07702 257310001870 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.1e-14 257310001871 Fumarase C-terminus; Region: Fumerase_C; cl00795 257310001872 fumarate hydratase; Provisional; Region: PRK06246 257310001873 PS00228 Tubulin-beta mRNA autoregulation signal. 257310001874 Signal peptide predicted for BB0357 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 23 and 24; signal peptide 257310001875 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310001876 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.9e-88 257310001877 Signal peptide predicted for BB0358 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.750 between residues 24 and 25; signal peptide 257310001878 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310001879 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.6e-70 257310001880 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 257310001881 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 257310001882 active site 257310001883 metal binding site [ion binding]; metal-binding site 257310001884 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 4.8e-13 257310001885 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310001886 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 257310001887 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310001888 Predicted helix-turn-helix motif with score 1572.000, SD 4.54 at aa 41-62, sequence LGNKEISEALGLSRPTVARLTF 257310001889 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 5e-09 257310001890 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 257310001891 HMMPfam hit to PF01144, DE Coenzyme A transferase, score 1.4e-57 257310001892 PS01274 CoA transferases signature 2. 257310001893 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 257310001894 HMMPfam hit to PF01144, DE Coenzyme A transferase, score 2.7e-110 257310001895 PS01273 CoA transferases signature 1. 257310001896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310001897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310001898 LysR substrate binding domain; Region: LysR_substrate; pfam03466 257310001899 dimerization interface [polypeptide binding]; other site 257310001900 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5e-29 257310001901 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 5.2e-16 257310001902 PS00044 Bacterial regulatory proteins, lysR family signature. 257310001903 Predicted helix-turn-helix motif with score 1536.000, SD 4.42 at aa 32-53, sequence GTISLAGERLGIEHSTVSRRID 257310001904 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310001905 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310001906 substrate binding site [chemical binding]; other site 257310001907 oxyanion hole (OAH) forming residues; other site 257310001908 trimer interface [polypeptide binding]; other site 257310001909 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.2e-35 257310001910 PS00166 enoyl-CoA hydratase signature. 257310001911 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 257310001912 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257310001913 HMMPfam hit to PF03446, DE NAD binding domain of 6-phosphogluconate dehydrogenase, score 0.0035 257310001914 Signal peptide predicted for BB0366 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 25 and 26; signal peptide 257310001915 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310001916 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 257310001917 putative ligand binding site [chemical binding]; other site 257310001918 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310001919 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310001920 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310001921 TM-ABC transporter signature motif; other site 257310001922 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.4e-34 257310001923 8 probable transmembrane helices predicted for BB0367 by TMHMM2.0 at aa 15-37, 42-61, 65-87, 100-122, 142-164, 193-215, 230-252 and 259-281 257310001924 Signal peptide predicted for BB0368 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.570 between residues 29 and 30; signal peptide 257310001925 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310001926 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310001927 TM-ABC transporter signature motif; other site 257310001928 9 probable transmembrane helices predicted for BB0368 by TMHMM2.0 at aa 20-42, 55-77, 81-103, 108-125, 145-167, 200-219, 224-241, 248-270 and 274-296 257310001929 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 3.6e-06 257310001930 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310001931 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310001932 Walker A/P-loop; other site 257310001933 ATP binding site [chemical binding]; other site 257310001934 Q-loop/lid; other site 257310001935 ABC transporter signature motif; other site 257310001936 Walker B; other site 257310001937 D-loop; other site 257310001938 H-loop/switch region; other site 257310001939 HMMPfam hit to PF00005, DE ABC transporter score 5.6e-50 257310001940 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001941 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310001942 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310001943 Walker A/P-loop; other site 257310001944 ATP binding site [chemical binding]; other site 257310001945 Q-loop/lid; other site 257310001946 ABC transporter signature motif; other site 257310001947 Walker B; other site 257310001948 D-loop; other site 257310001949 H-loop/switch region; other site 257310001950 HMMPfam hit to PF00005, DE ABC transporter score 5.9e-46 257310001951 PS00017 ATP/GTP-binding site motif A (P-loop). 257310001952 PS00211 ABC transporters family signature. 257310001953 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 257310001954 classical (c) SDRs; Region: SDR_c; cd05233 257310001955 NAD(P) binding site [chemical binding]; other site 257310001956 active site 257310001957 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 9.8e-67 257310001958 PS00061 Short-chain dehydrogenases/reductases family signature. 257310001959 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 257310001960 short chain dehydrogenase; Provisional; Region: PRK06125 257310001961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310001962 NAD(P) binding site [chemical binding]; other site 257310001963 active site 257310001964 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 9.1e-42 257310001965 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 257310001966 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 257310001967 active site 257310001968 FMN binding site [chemical binding]; other site 257310001969 substrate binding site [chemical binding]; other site 257310001970 homotetramer interface [polypeptide binding]; other site 257310001971 catalytic residue [active] 257310001972 HMMPfam hit to PF00724, DE NADH:flavin oxidoreductase / NADH oxidase family, score 1.5e-73 257310001973 Signal peptide predicted for BB0375 by SignalP 2.0 HMM (Signal peptide probabilty 0.923) with cleavage site probability 0.735 between residues 19 and 20; signal peptide 257310001974 Uncharacterized conserved protein [Function unknown]; Region: COG1434 257310001975 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 257310001976 putative active site [active] 257310001977 HMMPfam hit to PF02698, DE Uncharacterized ACR, COG1434, score 1.3e-06 257310001978 2 probable transmembrane helices predicted for BB0375 by TMHMM2.0 at aa 4-21 and 28-50 257310001979 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310001980 Signal peptide predicted for BB0376 by SignalP 2.0 HMM (Signal peptide probabilty 0.858) with cleavage site probability 0.698 between residues 31 and 32; signal peptide 257310001981 4 probable transmembrane helices predicted for BB0376 by TMHMM2.0 at aa 10-32, 41-63, 78-100 and 120-142 257310001982 PS00043 Bacterial regulatory proteins, gntR family signature. 257310001983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 257310001984 HMMPfam hit to PF01970, DE Integral membrane protein DUF112, score 2.3e-75 257310001985 12 probable transmembrane helices predicted for BB0377 by TMHMM2.0 at aa 20-42, 47-69, 108-130, 145-167, 169-191, 206-228, 257-279, 316-338, 359-381, 385-407, 414-432 and 469-488 257310001986 Signal peptide predicted for BB0378 by SignalP 2.0 HMM (Signal peptide probabilty 0.748) with cleavage site probability 0.539 between residues 37 and 38; signal peptide 257310001987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257310001988 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310001989 dimerization interface [polypeptide binding]; other site 257310001990 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310001991 dimer interface [polypeptide binding]; other site 257310001992 phosphorylation site [posttranslational modification] 257310001993 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310001994 ATP binding site [chemical binding]; other site 257310001995 Mg2+ binding site [ion binding]; other site 257310001996 G-X-G motif; other site 257310001997 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 3.6e-29 257310001998 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 1.7e-06 257310001999 HMMPfam hit to PF00672, DE HAMP domain, score 1.6e-09 257310002000 2 probable transmembrane helices predicted for BB0378 by TMHMM2.0 at aa 20-42 and 158-180 257310002001 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310002002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310002003 active site 257310002004 phosphorylation site [posttranslational modification] 257310002005 intermolecular recognition site; other site 257310002006 dimerization interface [polypeptide binding]; other site 257310002007 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310002008 DNA binding site [nucleotide binding] 257310002009 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 1.9e-20 257310002010 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.3e-31 257310002011 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 257310002012 PS00190 Cytochrome c family heme-binding site signature. 257310002013 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 257310002014 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 257310002015 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 257310002016 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 257310002017 tRNA; other site 257310002018 putative tRNA binding site [nucleotide binding]; other site 257310002019 putative NADP binding site [chemical binding]; other site 257310002020 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 257310002021 HMMPfam hit to PF00745, DE Glutamyl-tRNAGlu reductase, score 9.1e-180 257310002022 PS00012 Phosphopantetheine attachment site. 257310002023 peptide chain release factor 1; Validated; Region: prfA; PRK00591 257310002024 This domain is found in peptide chain release factors; Region: PCRF; smart00937 257310002025 RF-1 domain; Region: RF-1; pfam00472 257310002026 HMMPfam hit to PF03462, DE PCRF domain, score 7.3e-65 257310002027 HMMPfam hit to PF00472, DE Peptidyl-tRNA hydrolase domain, score 6.5e-71 257310002028 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 257310002029 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310002030 S-adenosylmethionine binding site [chemical binding]; other site 257310002031 PS00213 Lipocalin signature. 257310002032 PS00092 N-6 Adenine-specific DNA methylases signature. 257310002033 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 257310002034 putative GSH binding site [chemical binding]; other site 257310002035 catalytic residues [active] 257310002036 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 257310002037 Flavoprotein; Region: Flavoprotein; pfam02441 257310002038 HMMPfam hit to PF02441, DE Flavoprotein, score 1.7e-41 257310002039 Signal peptide predicted for BB0388 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.986 between residues 29 and 30; signal peptide 257310002040 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002041 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.3e-97 257310002042 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 257310002043 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 257310002044 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 257310002045 HMMPfam hit to PF00941, DE FAD binding domain in molybdopterin dehydrogenase, score 9.4e-24 257310002046 HMMPfam hit to PF03450, DE CO dehydrogenase flavoprotein C-terminal domain, score 1.9e-05 257310002047 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 257310002048 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 257310002049 catalytic loop [active] 257310002050 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 257310002051 iron binding site [ion binding]; other site 257310002052 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 257310002053 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 0.023 257310002054 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310002055 HMMPfam hit to PF01799, DE [2Fe-2S] binding domain, score 3.9e-43 257310002056 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 257310002057 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 257310002058 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310002059 HMMPfam hit to PF01315, DE Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain, score 3.7e-37 257310002060 HMMPfam hit to PF02738, DE Aldehyde oxidase and xanthine dehydrogenase, molybdopterin binding domain, score 1.2e-141 257310002061 PS00215 Mitochondrial energy transfer proteins signature. 257310002062 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 257310002063 putative hydrophobic ligand binding site [chemical binding]; other site 257310002064 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 257310002065 Signal peptide predicted for BB0395 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 23 and 24; signal peptide 257310002066 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 257310002067 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03180, DE NLPA lipoprotein, score 4.1e-107 257310002068 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 257310002069 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 257310002070 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 257310002071 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 257310002072 HMMPfam hit to PF01077, DE Nitrite and sulphite reductase 4Fe-4S domain, score 1.2e-14 257310002073 HMMPfam hit to PF03460, DE Nitrite/Sulfite reductase ferredoxin-like half domain, score 3.1e-15 257310002074 HMMPfam hit to PF03460, DE Nitrite/Sulfite reductase ferredoxin-like half domain, score 2e-20 257310002075 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 257310002076 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310002077 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310002078 Walker A/P-loop; other site 257310002079 ATP binding site [chemical binding]; other site 257310002080 Q-loop/lid; other site 257310002081 ABC transporter signature motif; other site 257310002082 Walker B; other site 257310002083 D-loop; other site 257310002084 H-loop/switch region; other site 257310002085 HMMPfam hit to PF00005, DE ABC transporter score 3.1e-49 257310002086 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002087 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310002088 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310002089 Walker A/P-loop; other site 257310002090 ATP binding site [chemical binding]; other site 257310002091 Q-loop/lid; other site 257310002092 ABC transporter signature motif; other site 257310002093 Walker B; other site 257310002094 D-loop; other site 257310002095 H-loop/switch region; other site 257310002096 HMMPfam hit to PF00005, DE ABC transporter score 2e-52 257310002097 PS00211 ABC transporters family signature. 257310002098 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002099 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310002100 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310002101 TM-ABC transporter signature motif; other site 257310002102 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 2.1e-26 257310002103 8 probable transmembrane helices predicted for BB0401 by TMHMM2.0 at aa 4-26, 31-53, 63-85, 98-117, 140-162, 193-215, 230-252 and 259-281 257310002104 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310002105 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310002106 TM-ABC transporter signature motif; other site 257310002107 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 2.5e-06 257310002108 8 probable transmembrane helices predicted for BB0402 by TMHMM2.0 at aa 31-53, 66-88, 98-120, 127-149, 169-191, 221-243, 258-280 and 292-314 257310002109 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 257310002110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002111 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 257310002112 putative dimerization interface [polypeptide binding]; other site 257310002113 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 8.8e-37 257310002114 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4e-16 257310002115 Predicted helix-turn-helix motif with score 1869.000, SD 5.55 at aa 22-43, sequence GSISGAARLLNISQPAVSRMLA 257310002116 Signal peptide predicted for BB0404 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.911 between residues 29 and 30; signal peptide 257310002117 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310002118 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 257310002119 putative ligand binding site [chemical binding]; other site 257310002120 1 probable transmembrane helix predicted for BB0404 by TMHMM2.0 at aa 5-27 257310002121 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257310002122 Amidase; Region: Amidase; pfam01425 257310002123 HMMPfam hit to PF01425, DE Amidase, score 1.3e-117 257310002124 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002125 PS00571 Amidases signature. 257310002126 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 257310002127 active site clefts [active] 257310002128 zinc binding site [ion binding]; other site 257310002129 dimer interface [polypeptide binding]; other site 257310002130 HMMPfam hit to PF00484, DE Carbonic anhydrase, score 1.2e-39 257310002131 Signal peptide predicted for BB0407 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.996 between residues 22 and 23; signal peptide 257310002132 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 257310002133 Signal peptide predicted for BB0408 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.992 between residues 24 and 25; signal peptide 257310002134 psiF repeat; Region: PsiF_repeat; pfam07769 257310002135 psiF repeat; Region: PsiF_repeat; pfam07769 257310002136 Putative cyclase; Region: Cyclase; pfam04199 257310002137 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 257310002138 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 257310002139 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 257310002140 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 1e-24 257310002141 YciI-like protein; Reviewed; Region: PRK12863 257310002142 HMMPfam hit to PF03795, DE YCII-related domain, score 7.4e-31 257310002143 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 257310002144 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02426, DE Muconolactone delta-isomerase, score 1.6e-60 257310002145 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 257310002146 HMMPfam hit to PF01144, DE Coenzyme A transferase, score 1.1e-50 257310002147 Coenzyme A transferase; Region: CoA_trans; cl17247 257310002148 HMMPfam hit to PF01144, DE Coenzyme A transferase, score 3.6e-79 257310002149 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 257310002150 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310002151 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310002152 Predicted helix-turn-helix motif with score 1256.000, SD 3.46 at aa 57-78, sequence MTLSEVAAATGLTRAGARRILL 257310002153 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 1.2e-64 257310002154 short chain dehydrogenase; Provisional; Region: PRK07577 257310002155 Signal peptide predicted for BB0416 by SignalP 2.0 HMM (Signal peptide probabilty 0.899) with cleavage site probability 0.649 between residues 20 and 21; signal peptide 257310002156 classical (c) SDRs; Region: SDR_c; cd05233 257310002157 NAD(P) binding site [chemical binding]; other site 257310002158 active site 257310002159 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.3e-59 257310002160 PS00061 Short-chain dehydrogenases/reductases family signature. 257310002161 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 257310002162 10 probable transmembrane helices predicted for BB0417 by TMHMM2.0 at aa 51-70, 83-105, 127-149, 170-192, 212-234, 278-295, 305-326, 339-361, 376-398 and 453-475 257310002163 HMMPfam hit to PF02667, DE Short chain fatty acid transporter score 6.8e-131 257310002164 Signal peptide predicted for BB0418 by SignalP 2.0 HMM (Signal peptide probabilty 0.659) with cleavage site probability 0.330 between residues 25 and 26; signal peptide 257310002165 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 257310002166 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310002167 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310002168 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 1.7e-29 257310002169 HMMPfam hit to PF02737, DE 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain, score 3.1e-61 257310002170 1 probable transmembrane helix predicted for BB0418 by TMHMM2.0 at aa 7-26 257310002171 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 257310002172 catalytic triad [active] 257310002173 putative active site [active] 257310002174 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 257310002175 catalytic residues [active] 257310002176 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002177 Autotransporter beta-domain; Region: Autotransporter; smart00869 257310002178 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 0.00029 257310002179 PS00095 C-5 cytosine-specific DNA methylases C-terminal signature. 257310002180 HMMPfam hit to PF00082, DE Subtilase family, score 2.3e-10 257310002181 PS00138 Serine proteases, subtilase family, serine active site. 257310002182 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 257310002183 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 257310002184 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00311, DE Phosphoenolpyruvate carboxylase, score 2.7e-63 257310002185 PS00393 Phosphoenolpyruvate carboxylase active site 2. 257310002186 PS00781 Phosphoenolpyruvate carboxylase active site 1. 257310002187 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 257310002188 Ligand Binding Site [chemical binding]; other site 257310002189 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 257310002190 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310002191 Coenzyme A binding pocket [chemical binding]; other site 257310002192 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 7.1e-15 257310002193 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 257310002194 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 257310002195 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 257310002196 putative ligand binding site [chemical binding]; other site 257310002197 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 257310002198 NAD binding site [chemical binding]; other site 257310002199 dimerization interface [polypeptide binding]; other site 257310002200 catalytic site [active] 257310002201 HMMPfam hit to PF02826, DE D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain, score 2e-11 257310002202 Signal peptide predicted for BB0426 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.994 between residues 30 and 31; signal peptide 257310002203 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 257310002204 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 257310002205 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 1.1e-61 257310002206 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 257310002207 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 257310002208 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257310002209 Cupin domain; Region: Cupin_2; pfam07883 257310002210 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257310002211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310002212 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.041 257310002213 Predicted helix-turn-helix motif with score 1165.000, SD 3.15 at aa 195-216, sequence GSLDAWAAYGGLSRRNLTRLFR 257310002214 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 257310002215 active site 257310002216 catalytic residues [active] 257310002217 metal binding site [ion binding]; metal-binding site 257310002218 HMMPfam hit to PF00682, DE HMGL-like, score 2.5e-83 257310002219 PS00816 Alpha-isopropylmalate and homocitrate synthases signature 2. 257310002220 PS00815 Alpha-isopropylmalate and homocitrate synthases signature 1. 257310002221 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 257310002222 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 257310002223 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310002224 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 2.3 257310002225 Predicted helix-turn-helix motif with score 1471.000, SD 4.20 at aa 181-202, sequence RGLAEWAAELGVTAKTVQRLFV 257310002226 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 1.2e-05 257310002227 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 257310002228 HMMPfam hit to PF00920, DE Dehydratase family, score 0 257310002229 PS00886 Dihydroxy-acid and 6-phosphogluconate dehydratases signature 1. 257310002230 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 257310002231 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 257310002232 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 257310002233 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 257310002234 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 257310002235 Signal peptide predicted for BB0435 by SignalP 2.0 HMM (Signal peptide probabilty 0.956) with cleavage site probability 0.386 between residues 30 and 31; signal peptide 257310002236 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 257310002237 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 3.9e-46 257310002238 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 1.2e-41 257310002239 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310002240 Signal peptide predicted for BB0436 by SignalP 2.0 HMM (Signal peptide probabilty 0.841) with cleavage site probability 0.344 between residues 35 and 36; signal peptide 257310002241 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 257310002242 HMMPfam hit to PF00873, DE AcrB/AcrD/AcrF family, score 0 257310002243 12 probable transmembrane helices predicted for BB0436 by TMHMM2.0 at aa 12-34, 343-362, 369-391, 396-418, 439-461, 476-498, 552-574, 881-900, 907-929, 934-956, 977-999 and 1014-1036 257310002244 Signal peptide predicted for BB0437 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.832 between residues 36 and 37; signal peptide 257310002245 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 257310002246 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257310002247 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310002248 HMMPfam hit to PF00529, DE hemolysin D, score 5.4e-40 257310002249 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310002250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002251 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 257310002252 putative effector binding pocket; other site 257310002253 putative dimerization interface [polypeptide binding]; other site 257310002254 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.2e-18 257310002255 Predicted helix-turn-helix motif with score 980.000, SD 2.52 at aa 17-38, sequence NSFTRAADALVLPRTTVTTVIQ 257310002256 PS00044 Bacterial regulatory proteins, lysR family signature. 257310002257 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.9e-43 257310002258 Signal peptide predicted for BB0439 by SignalP 2.0 HMM (Signal peptide probabilty 0.993) with cleavage site probability 0.983 between residues 36 and 37; signal peptide 257310002259 Domain of unknown function DUF20; Region: UPF0118; pfam01594 257310002260 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 257310002261 8 probable transmembrane helices predicted for BB0439 by TMHMM2.0 at aa 5-27, 31-48, 61-83, 156-178, 211-233, 243-265, 270-292 and 323-342 257310002262 HMMPfam hit to PF01594, DE Domain of unknown function DUF20, score 1.7e-28 257310002263 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 257310002264 voltage-gated potassium channel; Provisional; Region: PRK10537 257310002265 Ion channel; Region: Ion_trans_2; pfam07885 257310002266 TrkA-N domain; Region: TrkA_N; pfam02254 257310002267 7 probable transmembrane helices predicted for BB0441 by TMHMM2.0 at aa 19-41, 61-83, 88-106, 111-128, 141-163, 173-192 and 205-227 257310002268 HMMPfam hit to PF00520, DE Ion transport protein, score 1.4e-07 257310002269 HMMPfam hit to PF02254, DE TrkA-N domain, score 5.9e-10 257310002270 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310002271 homotrimer interaction site [polypeptide binding]; other site 257310002272 putative active site [active] 257310002273 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 6.3e-33 257310002274 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 257310002275 GSH binding site (G-site) [chemical binding]; other site 257310002276 C-terminal domain interface [polypeptide binding]; other site 257310002277 dimer interface [polypeptide binding]; other site 257310002278 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 257310002279 dimer interface [polypeptide binding]; other site 257310002280 N-terminal domain interface [polypeptide binding]; other site 257310002281 substrate binding pocket (H-site) [chemical binding]; other site 257310002282 Signal peptide predicted for BB0444 by SignalP 2.0 HMM (Signal peptide probabilty 0.990) with cleavage site probability 0.781 between residues 25 and 26; signal peptide 257310002283 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 257310002284 SPFH domain / Band 7 family; Region: Band_7; pfam01145 257310002285 HMMPfam hit to PF01145, DE SPFH domain / Band 7 family, score 3.3e-20 257310002286 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 257310002287 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 257310002288 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 257310002289 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 257310002290 dimer interface [polypeptide binding]; other site 257310002291 active site 257310002292 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 257310002293 substrate binding site [chemical binding]; other site 257310002294 catalytic residue [active] 257310002295 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 257310002296 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310002297 motif II; other site 257310002298 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 4.9e-12 257310002299 Signal peptide predicted for BB0448 by SignalP 2.0 HMM (Signal peptide probabilty 0.932) with cleavage site probability 0.277 between residues 23 and 24; signal peptide 257310002300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002301 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 257310002302 putative effector binding pocket; other site 257310002303 putative dimerization interface [polypeptide binding]; other site 257310002304 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.4e-16 257310002305 Predicted helix-turn-helix motif with score 1611.000, SD 4.67 at aa 17-38, sequence PSLSAAARALNVTPPALSMRLR 257310002306 PS00044 Bacterial regulatory proteins, lysR family signature. 257310002307 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 8.3e-34 257310002308 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 257310002309 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002310 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002311 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002312 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002313 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002314 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002315 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002316 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002317 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002318 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002319 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 257310002320 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310002321 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310002322 PS01098 Lipolytic enzymes 'G-D-S-L' family, serine active site. 257310002323 HMMPfam hit to PF03212, DE Pertactin, score 0.00028 257310002324 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 1.1e-32 257310002325 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002326 Predicted small secreted protein [Function unknown]; Region: COG5510 257310002327 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310002328 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002329 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002330 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002331 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002332 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002333 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002334 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002335 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002336 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002337 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002338 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310002339 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 257310002340 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310002341 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310002342 PS00141 Eukaryotic and viral aspartyl proteases active site. 257310002343 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 1.4e-28 257310002344 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002345 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 257310002346 Signal peptide predicted for BB0454 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 23 and 24; signal peptide 257310002347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310002348 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.8e-55 257310002349 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 257310002350 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310002351 acyl-activating enzyme (AAE) consensus motif; other site 257310002352 AMP binding site [chemical binding]; other site 257310002353 active site 257310002354 CoA binding site [chemical binding]; other site 257310002355 HMMPfam hit to PF00501, DE AMP-binding protein, score 3.1e-108 257310002356 PS00455 AMP-binding domain signature. 257310002357 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310002358 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310002359 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310002360 Predicted helix-turn-helix motif with score 1208.000, SD 3.30 at aa 22-43, sequence LSLADLAAATGLPRSTTHRMAT 257310002361 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 8.8e-11 257310002362 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310002363 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310002364 substrate binding site [chemical binding]; other site 257310002365 oxyanion hole (OAH) forming residues; other site 257310002366 trimer interface [polypeptide binding]; other site 257310002367 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 7.3e-28 257310002368 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310002369 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 257310002370 HMMPfam hit to PF02627, DE Carboxymuconolactone decarboxylase, score 6.2e-20 257310002371 Signal peptide predicted for BB0459 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.940 between residues 23 and 24; signal peptide 257310002372 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002373 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7e-99 257310002374 PS00237 G-protein coupled receptors signature. 257310002375 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 257310002376 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 257310002377 NADP binding site [chemical binding]; other site 257310002378 dimer interface [polypeptide binding]; other site 257310002379 HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 5.3e-27 257310002380 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310002381 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310002382 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 3.8e-63 257310002383 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310002384 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002385 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310002386 putative dimerization interface [polypeptide binding]; other site 257310002387 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 9.3e-40 257310002388 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.4e-22 257310002389 PS00044 Bacterial regulatory proteins, lysR family signature. 257310002390 Predicted helix-turn-helix motif with score 1062.000, SD 2.80 at aa 27-48, sequence CSFRQAAELSHRSQAAVTGQIK 257310002391 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 257310002392 putative active site [active] 257310002393 putative catalytic site [active] 257310002394 HMMPfam hit to PF01575, DE MaoC like domain, score 3.9e-18 257310002395 mesaconyl-CoA isomerase; Region: mesacon_CoA_iso; TIGR04253 257310002396 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310002397 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 6.8e-09 257310002398 Predicted helix-turn-helix motif with score 1034.000, SD 2.71 at aa 374-395, sequence HTDQVLGELLGLSARQLSDLHA 257310002399 Signal peptide predicted for BB0465 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.957 between residues 21 and 22; signal peptide 257310002400 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002401 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-101 257310002402 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310002403 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002404 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 257310002405 putative effector binding pocket; other site 257310002406 putative dimerization interface [polypeptide binding]; other site 257310002407 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.1e-39 257310002408 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.8e-17 257310002409 PS00044 Bacterial regulatory proteins, lysR family signature. 257310002410 Predicted helix-turn-helix motif with score 1530.000, SD 4.40 at aa 17-38, sequence GSFTKAADTLHMSKTSVTQLVQ 257310002411 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 257310002412 homotrimer interaction site [polypeptide binding]; other site 257310002413 putative active site [active] 257310002414 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 6.4e-30 257310002415 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 257310002416 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 257310002417 molybdopterin cofactor binding site; other site 257310002418 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 257310002419 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 257310002420 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 257310002421 putative molybdopterin cofactor binding site; other site 257310002422 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 257310002423 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 257310002424 FAD binding pocket [chemical binding]; other site 257310002425 FAD binding motif [chemical binding]; other site 257310002426 phosphate binding motif [ion binding]; other site 257310002427 beta-alpha-beta structure motif; other site 257310002428 NAD binding pocket [chemical binding]; other site 257310002429 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310002430 catalytic loop [active] 257310002431 iron binding site [ion binding]; other site 257310002432 HMMPfam hit to PF00384, DE Molybdopterin oxidoreductase, score 1.4e-17 257310002433 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310002434 HMMPfam hit to PF01568, DE Molydopterin dinucleotide binding domain, score 5.1e-14 257310002435 HMMPfam hit to PF00970, DE Oxidoreductase FAD-binding domain, score 1.3e-15 257310002436 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 2.1e-08 257310002437 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 9e-05 257310002438 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 257310002439 HMMPfam hit to PF02667, DE Short chain fatty acid transporter score 4.5e-52 257310002440 10 probable transmembrane helices predicted for BB0469 by TMHMM2.0 at aa 41-60, 73-95, 115-137, 158-180, 206-228, 262-284, 294-313, 325-347, 373-395 and 451-473 257310002441 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310002442 Signal peptide predicted for BB0470 by SignalP 2.0 HMM (Signal peptide probabilty 0.725) with cleavage site probability 0.724 between residues 36 and 37; signal peptide 257310002443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310002444 DNA-binding site [nucleotide binding]; DNA binding site 257310002445 FCD domain; Region: FCD; pfam07729 257310002446 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 2e-08 257310002447 Signal peptide predicted for BB0471 by SignalP 2.0 HMM (Signal peptide probabilty 0.966) with cleavage site probability 0.931 between residues 24 and 25; signal peptide 257310002448 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 257310002449 DNA-binding site [nucleotide binding]; DNA binding site 257310002450 RNA-binding motif; other site 257310002451 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00313, DE 'Cold-shock' DNA-binding domain, score 5.2e-30 257310002452 PS00352 'Cold-shock' DNA-binding domain signature. 257310002453 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310002454 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002455 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 257310002456 putative dimerization interface [polypeptide binding]; other site 257310002457 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.2e-26 257310002458 Predicted helix-turn-helix motif with score 1219.000, SD 3.34 at aa 16-37, sequence RSITKAASALHIVQPALTAQIK 257310002459 PS00044 Bacterial regulatory proteins, lysR family signature. 257310002460 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.9e-30 257310002461 Signal peptide predicted for BB0474 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.990 between residues 25 and 26; signal peptide 257310002462 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002463 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1e-82 257310002464 Sulfatase; Region: Sulfatase; cl17466 257310002465 choline-sulfatase; Region: chol_sulfatase; TIGR03417 257310002466 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 257310002467 HMMPfam hit to PF00884, DE Sulfatase, score 2.9e-46 257310002468 PS00523 Sulfatases signature 1. 257310002469 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002470 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.5e-76 257310002471 Signal peptide predicted for BB0477 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.833 between residues 36 and 37; signal peptide 257310002472 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002473 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.3e-63 257310002474 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 257310002475 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 257310002476 active site 257310002477 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310002478 HMMPfam hit to PF01685, DE Chlorohydrolase, score 0.0014 257310002479 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 257310002480 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 257310002481 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 257310002482 HMMPfam hit to PF02492, DE Cobalamin synthesis protein/P47K, score 1.7e-55 257310002483 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002484 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 257310002485 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 257310002486 homodimer interface [polypeptide binding]; other site 257310002487 active site 257310002488 TDP-binding site; other site 257310002489 acceptor substrate-binding pocket; other site 257310002490 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310002491 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310002492 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 1e-14 257310002493 PS01081 Bacterial regulatory proteins, tetR family signature. 257310002494 Predicted helix-turn-helix motif with score 1644.000, SD 4.79 at aa 35-56, sequence VTMERVAQAADVARGTLYNHFP 257310002495 Low % GC region. Contains several plasmid-related genes. Unique relative to pertussis. In parapertussis it is replaced by another phage-related region 257310002496 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 257310002497 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 257310002498 TIR domain; Region: TIR_2; pfam13676 257310002499 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 257310002500 FIC domain binding interface [polypeptide binding]; other site 257310002501 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 257310002502 6 probable transmembrane helices predicted for BB0488 by TMHMM2.0 at aa 29-51, 72-94, 146-168, 175-197, 210-232 and 244-261 257310002503 Signal peptide predicted for BB0489 by SignalP 2.0 HMM (Signal peptide probabilty 0.978) with cleavage site probability 0.494 between residues 25 and 26; signal peptide 257310002504 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310002505 3 probable transmembrane helices predicted for BB0490 by TMHMM2.0 at aa 4-26, 47-69 and 79-101 257310002506 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 257310002507 Signal peptide predicted for BB0491 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 22 and 23; signal peptide 257310002508 Type IV secretion system proteins; Region: T4SS; pfam07996 257310002509 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 257310002510 putative transferase, LIC12162 family; Region: o_ant_LIC12162; TIGR04331 257310002511 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 257310002512 active site 257310002513 metal binding site [ion binding]; metal-binding site 257310002514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310002515 AAA domain; Region: AAA_23; pfam13476 257310002516 Walker A/P-loop; other site 257310002517 ATP binding site [chemical binding]; other site 257310002518 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310002519 ABC transporter signature motif; other site 257310002520 Walker B; other site 257310002521 D-loop; other site 257310002522 H-loop/switch region; other site 257310002523 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002524 Predicted helix-turn-helix motif with score 1001.000, SD 2.60 at aa 47-68, sequence SNFTEPSDMMGVKLSQVNYRYK 257310002525 heat shock protein 90; Provisional; Region: PRK05218 257310002526 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310002527 ATP binding site [chemical binding]; other site 257310002528 Mg2+ binding site [ion binding]; other site 257310002529 G-X-G motif; other site 257310002530 PS00298 Heat shock hsp90 proteins family signature. 257310002531 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 5.8e-12 257310002532 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00183, DE Hsp90 protein, score 2.9e-179 257310002533 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 257310002534 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 257310002535 putative C-terminal domain interface [polypeptide binding]; other site 257310002536 putative GSH binding site (G-site) [chemical binding]; other site 257310002537 putative dimer interface [polypeptide binding]; other site 257310002538 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 257310002539 putative N-terminal domain interface [polypeptide binding]; other site 257310002540 putative dimer interface [polypeptide binding]; other site 257310002541 putative substrate binding pocket (H-site) [chemical binding]; other site 257310002542 HMMPfam hit to PF00043, DE Glutathione S-transferase, C-terminal domain, score 1e-09 257310002543 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 4.6e-07 257310002544 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 257310002545 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 257310002546 amidase catalytic site [active] 257310002547 Zn binding residues [ion binding]; other site 257310002548 substrate binding site [chemical binding]; other site 257310002549 HMMPfam hit to PF01510, DE N-acetylmuramoyl-L-alanine amidase, score 1.2e-44 257310002550 Signal peptide predicted for BB0504 by SignalP 2.0 HMM (Signal peptide probabilty 0.991) with cleavage site probability 0.486 between residues 23 and 24; signal peptide 257310002551 1 probable transmembrane helix predicted for BB0504 by TMHMM2.0 at aa 4-23 257310002552 Signal peptide predicted for BB0505 by SignalP 2.0 HMM (Signal peptide probabilty 0.717) with cleavage site probability 0.544 between residues 24 and 25; signal peptide 257310002553 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 257310002554 7 probable transmembrane helices predicted for BB0505 by TMHMM2.0 at aa 7-29, 33-54, 66-88, 98-120, 161-183, 193-212 and 219-241 257310002555 signal recognition particle protein; Provisional; Region: PRK10867 257310002556 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 257310002557 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 257310002558 GTP binding site [chemical binding]; other site 257310002559 Signal peptide binding domain; Region: SRP_SPB; pfam02978 257310002560 HMMPfam hit to PF02881, DE SRP54-type protein, helical bundle domain, score 1.4e-27 257310002561 HMMPfam hit to PF00448, DE SRP54-type protein, GTPase domain, score 7.2e-109 257310002562 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002563 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310002564 PS00300 SRP54-type proteins GTP-binding domain signature. 257310002565 HMMPfam hit to PF02978, DE Signal peptide binding domain, score 4.4e-40 257310002566 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 257310002567 BON domain; Region: BON; pfam04972 257310002568 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 257310002569 HMMPfam hit to PF01476, DE LysM domain, score 2.2e-14 257310002570 1 probable transmembrane helix predicted for BB0507 by TMHMM2.0 at aa 7-29 257310002571 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 257310002572 thiS-thiF/thiG interaction site; other site 257310002573 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02597, DE ThiS family, score 3.6e-16 257310002574 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 257310002575 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 2.3e-20 257310002576 PS00037 Myb DNA-binding domain repeat signature 1. 257310002577 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 257310002578 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02390, DE methyltransferase, score 1.3e-74 257310002579 Signal peptide predicted for BB0511 by SignalP 2.0 HMM (Signal peptide probabilty 0.673) with cleavage site probability 0.179 between residues 25 and 26; signal peptide 257310002580 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310002581 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002582 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 257310002583 putative dimerization interface [polypeptide binding]; other site 257310002584 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.9e-16 257310002585 PS00044 Bacterial regulatory proteins, lysR family signature. 257310002586 PS00070 Aldehyde dehydrogenases cysteine active site. 257310002587 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03466, DE LysR substrate binding domain, score 9.5e-37 257310002588 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310002589 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310002590 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.9e-61 257310002591 ortholog of Bordetella pertussis (BX470248) BP3695; hydroxymethylglutaryl-CoA lyase (pseudogene) 257310002592 HMMPfam hit to PF00682, DE HMGL-like, score 1.3e-45 257310002593 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310002594 Signal peptide predicted for BB0514 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 27 and 28; signal peptide 257310002595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310002596 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.3e-116 257310002597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 257310002598 Low %GC region 257310002599 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310002600 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310002601 putative DNA binding site [nucleotide binding]; other site 257310002602 putative Zn2+ binding site [ion binding]; other site 257310002603 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310002604 Predicted helix-turn-helix motif with score 1809.000, SD 5.35 at aa 31-52, sequence MSLAELAQELALGPSTVHRLLG 257310002605 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 1.3e-07 257310002606 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 257310002607 [2Fe-2S] cluster binding site [ion binding]; other site 257310002608 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 257310002609 alpha subunit interface [polypeptide binding]; other site 257310002610 active site 257310002611 substrate binding site [chemical binding]; other site 257310002612 Fe binding site [ion binding]; other site 257310002613 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 3.5e-23 257310002614 PS00570 Bacterial ring hydroxylating dioxygenases alpha-subunit signature. 257310002615 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 257310002616 HMMPfam hit to PF00866, DE Ring hydroxylating beta subunit, score 8.7e-05 257310002617 Signal peptide predicted for BB0519 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.800 between residues 43 and 44; signal peptide 257310002618 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310002619 1 probable transmembrane helix predicted for BB0519 by TMHMM2.0 at aa 17-39 257310002620 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 3e-12 257310002621 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310002622 4 probable transmembrane helices predicted for BB0520 by TMHMM2.0 at aa 21-40, 50-69, 90-112 and 127-149 257310002623 Signal peptide predicted for BB0521 by SignalP 2.0 HMM (Signal peptide probabilty 0.991) with cleavage site probability 0.431 between residues 27 and 28; signal peptide 257310002624 DctM-like transporters; Region: DctM; pfam06808 257310002625 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310002626 12 probable transmembrane helices predicted for BB0521 by TMHMM2.0 at aa 4-35, 56-78, 93-115, 135-157, 167-189, 209-231, 236-255, 268-290, 300-322, 324-346, 361-383 and 396-418 257310002627 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310002628 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 257310002629 catalytic loop [active] 257310002630 iron binding site [ion binding]; other site 257310002631 Toluene-4-monoxygenase electron transfer component of Pseudomonas mendocina hydroxylates toluene and forms p-cresol as part of a three component toluene-4-monoxygenase system. Electron transfer is from NADH to an NADH:ferredoxin oxidoreductase (TmoF in P; Region: T4MO_e_transfer_like; cd06190 257310002632 FAD binding pocket [chemical binding]; other site 257310002633 FAD binding motif [chemical binding]; other site 257310002634 phosphate binding motif [ion binding]; other site 257310002635 beta-alpha-beta structure motif; other site 257310002636 NAD binding pocket [chemical binding]; other site 257310002637 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 0.14 257310002638 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310002639 HMMPfam hit to PF00970, DE Oxidoreductase FAD-binding domain, score 7.9e-05 257310002640 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 0.00066 257310002641 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 257310002642 iron-sulfur cluster [ion binding]; other site 257310002643 [2Fe-2S] cluster binding site [ion binding]; other site 257310002644 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 2.7e-13 257310002645 intracellular protease, PfpI family; Region: PfpI; TIGR01382 257310002646 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 257310002647 conserved cys residue [active] 257310002648 HMMPfam hit to PF01965, DE DJ-1/PfpI family, score 2.7e-49 257310002649 Signal peptide predicted for BB0525 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.597 between residues 24 and 25; signal peptide 257310002650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310002651 1 probable transmembrane helix predicted for BB0525 by TMHMM2.0 at aa 7-29 257310002652 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.9e-78 257310002653 HipA-like N-terminal domain; Region: HipA_N; pfam07805 257310002654 HipA N-terminal domain; Region: Couple_hipA; cl11853 257310002655 HipA-like N-terminal domain; Region: HipA_N; pfam07805 257310002656 HipA-like C-terminal domain; Region: HipA_C; pfam07804 257310002657 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 257310002658 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310002659 non-specific DNA binding site [nucleotide binding]; other site 257310002660 salt bridge; other site 257310002661 sequence-specific DNA binding site [nucleotide binding]; other site 257310002662 HMMPfam hit to PF01381, DE Helix-turn-helix, score 0.00017 257310002663 Predicted helix-turn-helix motif with score 1980.000, SD 5.93 at aa 30-51, sequence ISQASLAERMGASLSTVRRMEK 257310002664 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310002665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002666 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310002667 dimerization interface [polypeptide binding]; other site 257310002668 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.1e-32 257310002669 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 7e-22 257310002670 PS00044 Bacterial regulatory proteins, lysR family signature. 257310002671 Predicted helix-turn-helix motif with score 1861.000, SD 5.53 at aa 30-51, sequence GSLRAAAQEMHVTQPALSRMLE 257310002672 Signal peptide predicted for BB0531 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.447 between residues 23 and 24; signal peptide 257310002673 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002674 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.5e-81 257310002675 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 257310002676 CoA binding domain; Region: CoA_binding_2; pfam13380 257310002677 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 257310002678 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 257310002679 HMMPfam hit to PF02629, DE CoA binding domain, score 5.9e-07 257310002680 enoyl-CoA hydratase; Provisional; Region: PRK08252 257310002681 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310002682 substrate binding site [chemical binding]; other site 257310002683 oxyanion hole (OAH) forming residues; other site 257310002684 trimer interface [polypeptide binding]; other site 257310002685 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3.4e-35 257310002686 PS00166 enoyl-CoA hydratase signature. 257310002687 Signal peptide predicted for BB0534 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.453 between residues 27 and 28; signal peptide 257310002688 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002689 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-80 257310002690 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 257310002691 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002692 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.3e-82 257310002693 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 257310002694 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 257310002695 active site residue [active] 257310002696 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 257310002697 active site residue [active] 257310002698 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 257310002699 active site residue [active] 257310002700 HMMPfam hit to PF00581, DE Rhodanese-like domain, score 3.1e-09 257310002701 HMMPfam hit to PF00581, DE Rhodanese-like domain, score 0.00042 257310002702 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 257310002703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002704 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 257310002705 putative dimerization interface [polypeptide binding]; other site 257310002706 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 8.8e-21 257310002707 Predicted helix-turn-helix motif with score 1633.000, SD 4.75 at aa 16-37, sequence GTVTRAAETMYVTQSAVSRLIS 257310002708 PS00044 Bacterial regulatory proteins, lysR family signature. 257310002709 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.8e-35 257310002710 hypothetical protein; Provisional; Region: PRK06154 257310002711 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310002712 PYR/PP interface [polypeptide binding]; other site 257310002713 dimer interface [polypeptide binding]; other site 257310002714 TPP binding site [chemical binding]; other site 257310002715 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310002716 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 257310002717 TPP-binding site; other site 257310002718 dimer interface [polypeptide binding]; other site 257310002719 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 6e-16 257310002720 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 3e-20 257310002721 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 5.2e-18 257310002722 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310002723 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310002724 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 5.3e-46 257310002725 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310002726 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310002727 substrate binding site [chemical binding]; other site 257310002728 oxyanion hole (OAH) forming residues; other site 257310002729 trimer interface [polypeptide binding]; other site 257310002730 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3.3e-29 257310002731 Signal peptide predicted for BB0542 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.984 between residues 28 and 29; signal peptide 257310002732 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002733 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.1e-75 257310002734 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310002735 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310002736 putative DNA binding site [nucleotide binding]; other site 257310002737 putative Zn2+ binding site [ion binding]; other site 257310002738 Predicted helix-turn-helix motif with score 1496.000, SD 4.28 at aa 41-62, sequence VSVTEIAQRTGLQRPTVHRLLD 257310002739 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 7.2e-05 257310002740 Signal peptide predicted for BB0544 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 21 and 22; signal peptide 257310002741 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002742 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.1e-109 257310002743 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 257310002744 DUF35 OB-fold domain; Region: DUF35; pfam01796 257310002745 HMMPfam hit to PF01796, DE Domain of unknown function DUF35, score 2.1e-09 257310002746 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 257310002747 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310002748 active site 257310002749 acyl-CoA synthetase; Validated; Region: PRK06188 257310002750 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310002751 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 257310002752 acyl-activating enzyme (AAE) consensus motif; other site 257310002753 acyl-activating enzyme (AAE) consensus motif; other site 257310002754 putative AMP binding site [chemical binding]; other site 257310002755 putative active site [active] 257310002756 putative CoA binding site [chemical binding]; other site 257310002757 HMMPfam hit to PF00501, DE AMP-binding protein, score 3.8e-110 257310002758 PS00455 AMP-binding domain signature. 257310002759 Transcriptional regulators [Transcription]; Region: PurR; COG1609 257310002760 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257310002761 DNA binding site [nucleotide binding] 257310002762 domain linker motif; other site 257310002763 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_5; cd06281 257310002764 putative dimerization interface [polypeptide binding]; other site 257310002765 putative ligand binding site [chemical binding]; other site 257310002766 HMMPfam hit to PF00356, DE Bacterial regulatory proteins, lacI family, score 1.2e-07 257310002767 Predicted helix-turn-helix motif with score 1768.000, SD 5.21 at aa 5-26, sequence VSVREVAHAAGVAISTVSRVLN 257310002768 HMMPfam hit to PF00532, DE Periplasmic binding proteins and sugar binding domain of the LacI family, score 2e-07 257310002769 Signal peptide predicted for BB0549 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 26 and 27; signal peptide 257310002770 2 probable transmembrane helices predicted for BB0549 by TMHMM2.0 at aa 7-26 and 52-69 257310002771 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 257310002772 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 5.5e-20 257310002773 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 257310002774 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 257310002775 NAD(P) binding site [chemical binding]; other site 257310002776 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 4.3e-49 257310002777 PS00059 Zinc-containing alcohol dehydrogenases signature. 257310002778 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 257310002779 tetramer interface [polypeptide binding]; other site 257310002780 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 257310002781 active site 257310002782 Mg2+/Mn2+ binding site [ion binding]; other site 257310002783 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 257310002784 HMMPfam hit to PF02627, DE Carboxymuconolactone decarboxylase, score 8.2e-12 257310002785 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310002786 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310002787 substrate binding site [chemical binding]; other site 257310002788 oxyanion hole (OAH) forming residues; other site 257310002789 trimer interface [polypeptide binding]; other site 257310002790 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3.5e-39 257310002791 PS00166 enoyl-CoA hydratase signature. 257310002792 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 257310002793 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 257310002794 active site 257310002795 NAD binding site [chemical binding]; other site 257310002796 metal binding site [ion binding]; metal-binding site 257310002797 HMMPfam hit to PF00465, DE Iron-containing alcohol dehydrogenase, score 5.4e-25 257310002798 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310002799 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310002800 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 6.8e-74 257310002801 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310002802 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310002803 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.6e-73 257310002804 Signal peptide predicted for BB0559 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 22 and 23; signal peptide 257310002805 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002806 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7.5e-75 257310002807 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310002808 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002809 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310002810 putative dimerization interface [polypeptide binding]; other site 257310002811 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.4e-38 257310002812 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.2e-21 257310002813 PS00044 Bacterial regulatory proteins, lysR family signature. 257310002814 Predicted helix-turn-helix motif with score 1082.000, SD 2.87 at aa 20-41, sequence GSFKVAANRLAITQPSMSIMIK 257310002815 Signal peptide predicted for BB0562 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.430 between residues 26 and 27; signal peptide 257310002816 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002817 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.6e-91 257310002818 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310002819 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310002820 active site 257310002821 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 8.9e-18 257310002822 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 1.6e-31 257310002823 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 5.1e-29 257310002824 Signal peptide predicted for BB0564 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.991 between residues 22 and 23; signal peptide 257310002825 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 257310002826 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002827 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.8e-91 257310002828 PS01039 Bacterial extracellular substrate-binding proteins, family 3 signature. 257310002829 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 257310002830 substrate binding site [chemical binding]; other site 257310002831 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 257310002832 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 257310002833 substrate binding site [chemical binding]; other site 257310002834 ligand binding site [chemical binding]; other site 257310002835 HMMPfam hit to PF00330, DE Aconitase family (aconitate hydratase), score 6.7e-15 257310002836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310002837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310002838 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310002839 putative dimerization interface [polypeptide binding]; other site 257310002840 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.7e-20 257310002841 Predicted helix-turn-helix motif with score 1226.000, SD 3.36 at aa 26-47, sequence GSFKHAADSLAVTQPSMSIMIR 257310002842 PS00044 Bacterial regulatory proteins, lysR family signature. 257310002843 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3e-35 257310002844 Signal peptide predicted for BB0568 by SignalP 2.0 HMM (Signal peptide probabilty 0.956) with cleavage site probability 0.891 between residues 30 and 31; signal peptide 257310002845 tricarballylate dehydrogenase; Validated; Region: PRK08274 257310002846 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257310002847 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 257310002848 Signal peptide predicted for BB0569 by SignalP 2.0 HMM (Signal peptide probabilty 0.969) with cleavage site probability 0.613 between residues 40 and 41; signal peptide 257310002849 2 probable transmembrane helices predicted for BB0569 by TMHMM2.0 at aa 21-40 and 45-67 257310002850 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 257310002851 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 257310002852 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 1.7e-20 257310002853 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310002854 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310002855 Walker A/P-loop; other site 257310002856 ATP binding site [chemical binding]; other site 257310002857 Q-loop/lid; other site 257310002858 ABC transporter signature motif; other site 257310002859 Walker B; other site 257310002860 D-loop; other site 257310002861 H-loop/switch region; other site 257310002862 HMMPfam hit to PF00005, DE ABC transporter score 4.2e-49 257310002863 PS00211 ABC transporters family signature. 257310002864 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002865 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310002866 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310002867 Walker A/P-loop; other site 257310002868 ATP binding site [chemical binding]; other site 257310002869 Q-loop/lid; other site 257310002870 ABC transporter signature motif; other site 257310002871 Walker B; other site 257310002872 D-loop; other site 257310002873 H-loop/switch region; other site 257310002874 HMMPfam hit to PF00005, DE ABC transporter score 6.3e-33 257310002875 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002876 Signal peptide predicted for BB0573 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.902 between residues 30 and 31; signal peptide 257310002877 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310002878 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310002879 TM-ABC transporter signature motif; other site 257310002880 10 probable transmembrane helices predicted for BB0573 by TMHMM2.0 at aa 13-34, 38-60, 67-86, 91-113, 120-139, 168-187, 219-241, 245-264, 271-293 and 303-325 257310002881 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.4e-10 257310002882 Signal peptide predicted for BB0574 by SignalP 2.0 HMM (Signal peptide probabilty 0.974) with cleavage site probability 0.568 between residues 31 and 32; signal peptide 257310002883 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310002884 TM-ABC transporter signature motif; other site 257310002885 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 3.4e-29 257310002886 8 probable transmembrane helices predicted for BB0574 by TMHMM2.0 at aa 10-32, 44-61, 65-87, 99-118, 138-160, 191-213, 233-255 and 267-289 257310002887 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310002888 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 257310002889 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 0.04 257310002890 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310002891 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310002892 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 1.6e-13 257310002893 PS01081 Bacterial regulatory proteins, tetR family signature. 257310002894 Predicted helix-turn-helix motif with score 1064.000, SD 2.81 at aa 34-55, sequence ATVKDIADEAGVSAGLMYQYVS 257310002895 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 257310002896 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 257310002897 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 257310002898 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310002899 active site 257310002900 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 0.00032 257310002901 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 257310002902 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 257310002903 classical (c) SDRs; Region: SDR_c; cd05233 257310002904 NAD(P) binding site [chemical binding]; other site 257310002905 active site 257310002906 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 3e-60 257310002907 1 probable transmembrane helix predicted for BB0580 by TMHMM2.0 at aa 9-28 257310002908 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310002909 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310002910 active site 257310002911 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.8e-46 257310002912 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 5e-46 257310002913 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 1.1e-24 257310002914 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310002915 classical (c) SDRs; Region: SDR_c; cd05233 257310002916 NAD(P) binding site [chemical binding]; other site 257310002917 active site 257310002918 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1e-80 257310002919 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 257310002920 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310002921 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 257310002922 acyl-activating enzyme (AAE) consensus motif; other site 257310002923 putative AMP binding site [chemical binding]; other site 257310002924 putative active site [active] 257310002925 putative CoA binding site [chemical binding]; other site 257310002926 HMMPfam hit to PF00501, DE AMP-binding protein, score 2.1e-104 257310002927 PS00455 AMP-binding domain signature. 257310002928 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310002929 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310002930 substrate binding site [chemical binding]; other site 257310002931 oxyanion hole (OAH) forming residues; other site 257310002932 trimer interface [polypeptide binding]; other site 257310002933 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3.5e-33 257310002934 PS00166 enoyl-CoA hydratase signature. 257310002935 Signal peptide predicted for BB0586 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.739 between residues 27 and 28; signal peptide 257310002936 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002937 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.3e-62 257310002938 SnoaL-like domain; Region: SnoaL_4; pfam13577 257310002939 putative succinate dehydrogenase; Reviewed; Region: PRK12842 257310002940 Predicted oxidoreductase [General function prediction only]; Region: COG3573 257310002941 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 257310002942 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 257310002943 putative active site [active] 257310002944 putative catalytic site [active] 257310002945 HMMPfam hit to PF01575, DE MaoC like domain, score 2.4e-14 257310002946 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310002947 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310002948 active site 257310002949 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 3.7e-06 257310002950 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 1.5e-07 257310002951 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 5.3e-53 257310002952 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310002953 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310002954 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 7.4e-58 257310002955 PS00017 ATP/GTP-binding site motif A (P-loop). 257310002956 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310002957 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310002958 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 8.6e-68 257310002959 Signal peptide predicted for BB0594 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 25 and 26; signal peptide 257310002960 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310002961 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 8.4e-82 257310002962 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 257310002963 SnoaL-like domain; Region: SnoaL_3; pfam13474 257310002964 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 257310002965 putative FMN binding site [chemical binding]; other site 257310002966 HMMPfam hit to PF00881, DE Nitroreductase family, score 0.0028 257310002967 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310002968 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310002969 substrate binding site [chemical binding]; other site 257310002970 oxyanion hole (OAH) forming residues; other site 257310002971 trimer interface [polypeptide binding]; other site 257310002972 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 2e-40 257310002973 PS00166 enoyl-CoA hydratase signature. 257310002974 Signal peptide predicted for BB0598 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 28 and 29; signal peptide 257310002975 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310002976 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 257310002977 putative ligand binding site [chemical binding]; other site 257310002978 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 0.055 257310002979 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310002980 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310002981 TM-ABC transporter signature motif; other site 257310002982 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 2.8e-32 257310002983 8 probable transmembrane helices predicted for BB0599 by TMHMM2.0 at aa 10-32, 37-59, 64-86, 99-121, 147-164, 194-216, 231-253 and 260-282 257310002984 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310002985 Signal peptide predicted for BB0600 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.347 between residues 41 and 42; signal peptide 257310002986 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310002987 TM-ABC transporter signature motif; other site 257310002988 10 probable transmembrane helices predicted for BB0600 by TMHMM2.0 at aa 7-29, 33-50, 57-76, 80-102, 109-126, 146-168, 189-211, 221-240, 247-269 and 273-295 257310002989 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310002990 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.5e-06 257310002991 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310002992 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310002993 Walker A/P-loop; other site 257310002994 ATP binding site [chemical binding]; other site 257310002995 Q-loop/lid; other site 257310002996 ABC transporter signature motif; other site 257310002997 Walker B; other site 257310002998 D-loop; other site 257310002999 H-loop/switch region; other site 257310003000 HMMPfam hit to PF00005, DE ABC transporter score 4.7e-41 257310003001 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003002 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310003003 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310003004 Walker A/P-loop; other site 257310003005 ATP binding site [chemical binding]; other site 257310003006 Q-loop/lid; other site 257310003007 ABC transporter signature motif; other site 257310003008 Walker B; other site 257310003009 D-loop; other site 257310003010 H-loop/switch region; other site 257310003011 HMMPfam hit to PF00005, DE ABC transporter score 2.7e-47 257310003012 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003013 PS00211 ABC transporters family signature. 257310003014 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 257310003015 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 257310003016 putative active site [active] 257310003017 putative FMN binding site [chemical binding]; other site 257310003018 putative substrate binding site [chemical binding]; other site 257310003019 putative catalytic residue [active] 257310003020 HMMPfam hit to PF00724, DE NADH:flavin oxidoreductase / NADH oxidase family, score 1.9e-48 257310003021 short chain dehydrogenase; Provisional; Region: PRK06125 257310003022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310003023 NAD(P) binding site [chemical binding]; other site 257310003024 active site 257310003025 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.9e-46 257310003026 Signal peptide predicted for BB0605 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.902 between residues 22 and 23; signal peptide 257310003027 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003028 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.3e-82 257310003029 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 257310003030 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 257310003031 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 257310003032 HMMPfam hit to PF02550, DE Acetyl-CoA hydrolase/transferase, score 1.7e-35 257310003033 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 257310003034 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310003035 acyl-activating enzyme (AAE) consensus motif; other site 257310003036 AMP binding site [chemical binding]; other site 257310003037 active site 257310003038 CoA binding site [chemical binding]; other site 257310003039 HMMPfam hit to PF00501, DE AMP-binding protein, score 2.3e-97 257310003040 PS00455 AMP-binding domain signature. 257310003041 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310003042 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 257310003043 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310003044 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 4.8e-08 257310003045 Predicted helix-turn-helix motif with score 1364.000, SD 3.83 at aa 38-59, sequence LSNAELVRRTGLPKATVSRLTS 257310003046 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310003047 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 257310003048 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310003049 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 1.2e-07 257310003050 pyruvate carboxylase; Reviewed; Region: PRK12999 257310003051 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257310003052 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257310003053 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 257310003054 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 257310003055 active site 257310003056 catalytic residues [active] 257310003057 metal binding site [ion binding]; metal-binding site 257310003058 homodimer binding site [polypeptide binding]; other site 257310003059 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 257310003060 carboxyltransferase (CT) interaction site; other site 257310003061 biotinylation site [posttranslational modification]; other site 257310003062 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 2.4e-15 257310003063 HMMPfam hit to PF02436, DE Conserved carboxylase domain, score 5e-85 257310003064 HMMPfam hit to PF00682, DE HMGL-like, score 7.9e-41 257310003065 HMMPfam hit to PF02785, DE Biotin carboxylase C-terminal domain, score 4.4e-57 257310003066 HMMPfam hit to PF02786, DE Carbamoyl-phosphate synthase L chain, ATP binding domain, score 1e-94 257310003067 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310003068 PS00866 Carbamoyl-phosphate synthase subdomain signature 1. 257310003069 HMMPfam hit to PF00289, DE Carbamoyl-phosphate synthase L chain, N-terminal domain, score 2e-42 257310003070 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310003071 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310003072 active site 257310003073 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.5e-73 257310003074 PS00073 Acyl-CoA dehydrogenases signature 2. 257310003075 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 1.2e-51 257310003076 PS00072 Acyl-CoA dehydrogenases signature 1. 257310003077 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 7.5e-12 257310003078 enoyl-CoA hydratase; Region: PLN02864 257310003079 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310003080 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 257310003081 dimer interaction site [polypeptide binding]; other site 257310003082 substrate-binding tunnel; other site 257310003083 active site 257310003084 catalytic site [active] 257310003085 substrate binding site [chemical binding]; other site 257310003086 HMMPfam hit to PF01575, DE MaoC like domain, score 5e-27 257310003087 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310003088 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 257310003089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310003090 NAD(P) binding site [chemical binding]; other site 257310003091 active site 257310003092 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.8e-89 257310003093 PS00061 Short-chain dehydrogenases/reductases family signature. 257310003094 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 257310003095 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 257310003096 dimer interface [polypeptide binding]; other site 257310003097 active site 257310003098 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 1.6e-75 257310003099 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 9.6e-59 257310003100 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 257310003101 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 257310003102 Uncharacterized acyl-CoA synthetase subfamily similar to Acetoacetyl-CoA synthetase; Region: AACS_like; cd05968 257310003103 acyl-activating enzyme (AAE) consensus motif; other site 257310003104 putative AMP binding site [chemical binding]; other site 257310003105 putative active site [active] 257310003106 putative CoA binding site [chemical binding]; other site 257310003107 HMMPfam hit to PF00501, DE AMP-binding protein, score 1.9e-101 257310003108 PS00455 AMP-binding domain signature. 257310003109 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310003110 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310003111 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310003112 Predicted helix-turn-helix motif with score 1621.000, SD 4.71 at aa 54-75, sequence LGNGQLAQRTGLPPSTVSRIAQ 257310003113 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 8.6e-05 257310003114 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310003115 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310003116 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 2.8e-44 257310003117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310003118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310003119 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 257310003120 putative dimerization interface [polypeptide binding]; other site 257310003121 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7.7e-40 257310003122 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.8e-25 257310003123 PS00044 Bacterial regulatory proteins, lysR family signature. 257310003124 Predicted helix-turn-helix motif with score 1021.000, SD 2.66 at aa 16-37, sequence GNVTRASGLLNLVQPAVSRQLR 257310003125 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310003126 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 257310003127 active site 257310003128 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 1.6e-08 257310003129 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 8.1e-18 257310003130 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.5e-56 257310003131 PS00073 Acyl-CoA dehydrogenases signature 2. 257310003132 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 257310003133 Ligand binding site [chemical binding]; other site 257310003134 Electron transfer flavoprotein domain; Region: ETF; pfam01012 257310003135 HMMPfam hit to PF01012, DE Electron transfer flavoprotein beta subunit, score 5.1e-116 257310003136 PS01065 Electron transfer flavoprotein beta-subunit signature. 257310003137 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 257310003138 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 257310003139 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 257310003140 HMMPfam hit to PF00766, DE Electron transfer flavoprotein alpha subunit, score 1.3e-116 257310003141 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003142 PS00696 Electron transfer flavoprotein alpha-subunit signature. 257310003143 Uncharacterized conserved protein [Function unknown]; Region: COG3777 257310003144 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310003145 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310003146 active site 2 [active] 257310003147 active site 1 [active] 257310003148 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310003149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310003150 The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold; Region: PBP2_SyrM; cd08467 257310003151 putative substrate binding pocket [chemical binding]; other site 257310003152 putative dimerization interface [polypeptide binding]; other site 257310003153 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.9e-18 257310003154 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.8e-19 257310003155 PS00044 Bacterial regulatory proteins, lysR family signature. 257310003156 Predicted helix-turn-helix motif with score 1693.000, SD 4.95 at aa 33-54, sequence GNVSRAAEALGITQPAVSQNLR 257310003157 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 257310003158 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 1.3e-14 257310003159 Signal peptide predicted for BB0625 by SignalP 2.0 HMM (Signal peptide probabilty 0.987) with cleavage site probability 0.986 between residues 25 and 26; signal peptide 257310003160 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003161 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.2e-83 257310003162 Signal peptide predicted for BB0626 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.892 between residues 29 and 30; signal peptide 257310003163 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003164 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 5.2e-57 257310003165 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310003166 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310003167 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 2e-18 257310003168 PS01081 Bacterial regulatory proteins, tetR family signature. 257310003169 Predicted helix-turn-helix motif with score 1561.000, SD 4.50 at aa 34-55, sequence TTMRSIAQQAGIETASIYYHFP 257310003170 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 257310003171 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 2.1e-42 257310003172 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310003173 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310003174 substrate binding site [chemical binding]; other site 257310003175 oxyanion hole (OAH) forming residues; other site 257310003176 trimer interface [polypeptide binding]; other site 257310003177 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 7.4e-32 257310003178 PS00166 enoyl-CoA hydratase signature. 257310003179 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 257310003180 putative FMN binding site [chemical binding]; other site 257310003181 HMMPfam hit to PF00881, DE Nitroreductase family, score 0.00057 257310003182 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310003183 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310003184 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 8.5e-13 257310003185 Predicted helix-turn-helix motif with score 1063.000, SD 2.81 at aa 56-77, sequence ATLAEIGQLADLRPATILYHFA 257310003186 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 257310003187 active site 257310003188 metal binding site [ion binding]; metal-binding site 257310003189 HMMPfam hit to PF00682, DE HMGL-like, score 3.4e-18 257310003190 enoyl-CoA hydratase; Provisional; Region: PRK08252 257310003191 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310003192 substrate binding site [chemical binding]; other site 257310003193 oxyanion hole (OAH) forming residues; other site 257310003194 trimer interface [polypeptide binding]; other site 257310003195 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3e-16 257310003196 PS00166 enoyl-CoA hydratase signature. 257310003197 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310003198 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310003199 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.3e-57 257310003200 Signal peptide predicted for BB0635 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.861 between residues 23 and 24; signal peptide 257310003201 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003202 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310003203 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7.2e-64 257310003204 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 257310003205 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 257310003206 active site 257310003207 NAD binding site [chemical binding]; other site 257310003208 metal binding site [ion binding]; metal-binding site 257310003209 HMMPfam hit to PF00465, DE Iron-containing alcohol dehydrogenase, score 1.5e-12 257310003210 enoyl-CoA hydratase; Provisional; Region: PRK06688 257310003211 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310003212 substrate binding site [chemical binding]; other site 257310003213 oxyanion hole (OAH) forming residues; other site 257310003214 trimer interface [polypeptide binding]; other site 257310003215 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 7.5e-50 257310003216 PS00166 enoyl-CoA hydratase signature. 257310003217 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257310003218 Amidase; Region: Amidase; cl11426 257310003219 HMMPfam hit to PF01425, DE Amidase, score 7e-76 257310003220 PS00571 Amidases signature. 257310003221 N-formylglutamate amidohydrolase; Region: FGase; cl01522 257310003222 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 257310003223 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310003224 NAD(P) binding site [chemical binding]; other site 257310003225 catalytic residues [active] 257310003226 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 3.8e-130 257310003227 PS00070 Aldehyde dehydrogenases cysteine active site. 257310003228 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 257310003229 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 257310003230 HMMPfam hit to PF03358, DE NADPH-dependent FMN reductase, score 6.8e-11 257310003231 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310003232 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310003233 dimer interface [polypeptide binding]; other site 257310003234 conserved gate region; other site 257310003235 putative PBP binding loops; other site 257310003236 ABC-ATPase subunit interface; other site 257310003237 6 probable transmembrane helices predicted for BB0643 by TMHMM2.0 at aa 7-29, 63-85, 98-120, 125-147, 177-199 and 219-241 257310003238 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.004 257310003239 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310003240 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310003241 Walker A/P-loop; other site 257310003242 ATP binding site [chemical binding]; other site 257310003243 Q-loop/lid; other site 257310003244 ABC transporter signature motif; other site 257310003245 Walker B; other site 257310003246 D-loop; other site 257310003247 H-loop/switch region; other site 257310003248 HMMPfam hit to PF00005, DE ABC transporter score 5.8e-59 257310003249 PS00211 ABC transporters family signature. 257310003250 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003251 Signal peptide predicted for BB0645 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.621 between residues 26 and 27; signal peptide 257310003252 NMT1/THI5 like; Region: NMT1; pfam09084 257310003253 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 257310003254 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 257310003255 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 257310003256 HMMPfam hit to PF00296, DE Luciferase-like monooxygenase, score 5.3e-15 257310003257 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310003258 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310003259 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310003260 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 8.2e-23 257310003261 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 257310003262 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 257310003263 ligand binding site [chemical binding]; other site 257310003264 flexible hinge region; other site 257310003265 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 257310003266 putative switch regulator; other site 257310003267 non-specific DNA interactions [nucleotide binding]; other site 257310003268 DNA binding site [nucleotide binding] 257310003269 sequence specific DNA binding site [nucleotide binding]; other site 257310003270 putative cAMP binding site [chemical binding]; other site 257310003271 HMMPfam hit to PF00027, DE Cyclic nucleotide-binding domain, score 2.8e-15 257310003272 HMMPfam hit to PF00325, DE Bacterial regulatory proteins, crp family, score 3.7e-06 257310003273 Predicted helix-turn-helix motif with score 2079.000, SD 6.27 at aa 183-204, sequence LTHEQLARMTGLSRVTVTRALK 257310003274 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310003275 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310003276 NAD(P) binding site [chemical binding]; other site 257310003277 active site 257310003278 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.9e-75 257310003279 PS00061 Short-chain dehydrogenases/reductases family signature. 257310003280 Signal peptide predicted for BB0650 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 24 and 25; signal peptide 257310003281 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003282 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.1e-83 257310003283 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310003284 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 257310003285 NAD(P) binding site [chemical binding]; other site 257310003286 catalytic residues [active] 257310003287 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 9e-159 257310003288 PS00070 Aldehyde dehydrogenases cysteine active site. 257310003289 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310003290 Signal peptide predicted for BB0652 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.975 between residues 36 and 37; signal peptide 257310003291 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003292 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.4e-113 257310003293 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 257310003294 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 257310003295 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257310003296 Predicted helix-turn-helix motif with score 973.000, SD 2.50 at aa 325-346, sequence IEAIHTGKRFGLDVATMNRIFN 257310003297 HMMPfam hit to PF03446, DE NAD binding domain of 6-phosphogluconate dehydrogenase, score 0.013 257310003298 PS00895 3-hydroxyisobutyrate dehydrogenase signature. 257310003299 HMMPfam hit to PF02627, DE Carboxymuconolactone decarboxylase, score 9.5e-21 257310003300 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310003301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310003302 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310003303 dimerization interface [polypeptide binding]; other site 257310003304 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 4.5e-33 257310003305 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.5e-11 257310003306 PS00044 Bacterial regulatory proteins, lysR family signature. 257310003307 Predicted helix-turn-helix motif with score 1781.000, SD 5.25 at aa 20-41, sequence GSVRAAADKLNVNPSVVSRQIA 257310003308 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310003309 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310003310 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310003311 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 5.7e-25 257310003312 Predicted helix-turn-helix motif with score 1336.000, SD 3.74 at aa 37-58, sequence MRFSDLQAQSGLSKGTLHRFLK 257310003313 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310003314 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310003315 active site 257310003316 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 2.4e-05 257310003317 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 1.7e-15 257310003318 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 5.5e-54 257310003319 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 257310003320 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 257310003321 acyl-activating enzyme (AAE) consensus motif; other site 257310003322 putative AMP binding site [chemical binding]; other site 257310003323 putative active site [active] 257310003324 putative CoA binding site [chemical binding]; other site 257310003325 HMMPfam hit to PF00501, DE AMP-binding protein, score 2.3e-107 257310003326 PS00455 AMP-binding domain signature. 257310003327 Putative cyclase; Region: Cyclase; cl00814 257310003328 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310003329 active site 2 [active] 257310003330 active site 1 [active] 257310003331 Signal peptide predicted for BB0660 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.993 between residues 27 and 28; signal peptide 257310003332 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003333 1 probable transmembrane helix predicted for BB0660 by TMHMM2.0 at aa 5-27 257310003334 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 8e-95 257310003335 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310003336 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310003337 substrate binding site [chemical binding]; other site 257310003338 oxyanion hole (OAH) forming residues; other site 257310003339 trimer interface [polypeptide binding]; other site 257310003340 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 2.6e-48 257310003341 PS00166 enoyl-CoA hydratase signature. 257310003342 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 257310003343 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 257310003344 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310003345 FAD binding site [chemical binding]; other site 257310003346 substrate binding pocket [chemical binding]; other site 257310003347 catalytic base [active] 257310003348 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 7.9e-47 257310003349 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 2.4e-13 257310003350 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 2.1e-17 257310003351 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310003352 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310003353 substrate binding site [chemical binding]; other site 257310003354 oxyanion hole (OAH) forming residues; other site 257310003355 trimer interface [polypeptide binding]; other site 257310003356 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.2e-49 257310003357 PS00166 enoyl-CoA hydratase signature. 257310003358 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 257310003359 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 257310003360 dimer interface [polypeptide binding]; other site 257310003361 active site 257310003362 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 3.7e-50 257310003363 PS00737 Thiolases signature 2. 257310003364 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 4.6e-63 257310003365 PS00098 Thiolases acyl-enzyme intermediate signature. 257310003366 Signal peptide predicted for BB0666 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 20 and 21; signal peptide 257310003367 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003368 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.4e-79 257310003369 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 257310003370 CoA binding domain; Region: CoA_binding_2; pfam13380 257310003371 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 257310003372 HMMPfam hit to PF02629, DE CoA binding domain, score 2.6e-05 257310003373 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 257310003374 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310003375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310003376 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310003377 dimerization interface [polypeptide binding]; other site 257310003378 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.7e-16 257310003379 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 6e-23 257310003380 PS00044 Bacterial regulatory proteins, lysR family signature. 257310003381 Predicted helix-turn-helix motif with score 1546.000, SD 4.45 at aa 20-41, sequence ESFLKAAAELHVTPGAVSRLVK 257310003382 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 257310003383 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 257310003384 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 1e-25 257310003385 Amino acid synthesis; Region: AA_synth; pfam06684 257310003386 PS00758 ArgE / dapE / ACY1 / CPG2 / yscS family signature 1. 257310003387 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 257310003388 HMMPfam hit to PF02012, DE BNR/Asp-box repeat, score 3.5 257310003389 HMMPfam hit to PF02012, DE BNR/Asp-box repeat, score 15 257310003390 HMMPfam hit to PF02012, DE BNR/Asp-box repeat, score 1.2 257310003391 HMMPfam hit to PF02012, DE BNR/Asp-box repeat, score 0.45 257310003392 HMMPfam hit to PF02012, DE BNR/Asp-box repeat, score 1.5e+02 257310003393 HMMPfam hit to PF02012, DE BNR/Asp-box repeat, score 14 257310003394 glutathionine S-transferase; Provisional; Region: PRK10542 257310003395 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 257310003396 C-terminal domain interface [polypeptide binding]; other site 257310003397 GSH binding site (G-site) [chemical binding]; other site 257310003398 dimer interface [polypeptide binding]; other site 257310003399 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 257310003400 dimer interface [polypeptide binding]; other site 257310003401 N-terminal domain interface [polypeptide binding]; other site 257310003402 substrate binding pocket (H-site) [chemical binding]; other site 257310003403 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 4.1e-05 257310003404 HMMPfam hit to PF00043, DE Glutathione S-transferase, C-terminal domain, score 1.9e-14 257310003405 Signal peptide predicted for BB0674 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 22 and 23; signal peptide 257310003406 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003407 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.3e-98 257310003408 Signal peptide predicted for BB0675 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 27 and 28; signal peptide 257310003409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310003410 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.7e-44 257310003411 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310003412 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310003413 DNA-binding site [nucleotide binding]; DNA binding site 257310003414 FCD domain; Region: FCD; pfam07729 257310003415 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.6e-12 257310003416 aldehyde dehydrogenase family 7 member; Region: PLN02315 257310003417 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 257310003418 NAD(P) binding site [chemical binding]; other site 257310003419 catalytic residues [active] 257310003420 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 2.1e-133 257310003421 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310003422 cystathionine beta-lyase; Provisional; Region: PRK09028 257310003423 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 257310003424 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310003425 catalytic residue [active] 257310003426 HMMPfam hit to PF01053, DE Cys/Met metabolism PLP-dependent enzyme, score 4.8e-114 257310003427 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 257310003428 homotrimer interaction site [polypeptide binding]; other site 257310003429 putative active site [active] 257310003430 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 1.4e-20 257310003431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310003432 Signal peptide predicted for BB0680 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.961 between residues 19 and 20; signal peptide 257310003433 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 9.1e-38 257310003434 Uncharacterized conserved protein [Function unknown]; Region: COG5276 257310003435 LVIVD repeat; Region: LVIVD; pfam08309 257310003436 LVIVD repeat; Region: LVIVD; pfam08309 257310003437 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 257310003438 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 257310003439 P-loop, Walker A motif; other site 257310003440 Base recognition motif; other site 257310003441 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 257310003442 HMMPfam hit to PF02492, DE Cobalamin synthesis protein/P47K, score 1.9e-139 257310003443 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003444 FOG: WD40 repeat [General function prediction only]; Region: COG2319 257310003445 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 257310003446 structural tetrad; other site 257310003447 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310003448 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310003449 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310003450 Predicted helix-turn-helix motif with score 1370.000, SD 3.85 at aa 22-43, sequence MGITELAADLDLVQSNVHRLLQ 257310003451 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 8.3e-54 257310003452 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 257310003453 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 257310003454 inhibitor site; inhibition site 257310003455 active site 257310003456 dimer interface [polypeptide binding]; other site 257310003457 catalytic residue [active] 257310003458 HMMPfam hit to PF00701, DE Dihydrodipicolinate synthetase family, score 1.1e-59 257310003459 aspartate aminotransferase; Provisional; Region: PRK05764 257310003460 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310003461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310003462 homodimer interface [polypeptide binding]; other site 257310003463 catalytic residue [active] 257310003464 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 1e-55 257310003465 PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site. 257310003466 Signal peptide predicted for BB0688 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.735 between residues 29 and 30; signal peptide 257310003467 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310003468 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257310003469 substrate binding pocket [chemical binding]; other site 257310003470 membrane-bound complex binding site; other site 257310003471 hinge residues; other site 257310003472 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 4.5e-59 257310003473 Signal peptide predicted for BB0689 by SignalP 2.0 HMM (Signal peptide probabilty 0.937) with cleavage site probability 0.645 between residues 30 and 31; signal peptide 257310003474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310003475 dimer interface [polypeptide binding]; other site 257310003476 conserved gate region; other site 257310003477 putative PBP binding loops; other site 257310003478 ABC-ATPase subunit interface; other site 257310003479 4 probable transmembrane helices predicted for BB0689 by TMHMM2.0 at aa 15-37, 50-72, 87-109 and 185-207 257310003480 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 3.8e-14 257310003481 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310003482 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310003483 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310003484 Walker A/P-loop; other site 257310003485 ATP binding site [chemical binding]; other site 257310003486 Q-loop/lid; other site 257310003487 ABC transporter signature motif; other site 257310003488 Walker B; other site 257310003489 D-loop; other site 257310003490 H-loop/switch region; other site 257310003491 HMMPfam hit to PF00005, DE ABC transporter score 2e-64 257310003492 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003493 PS00211 ABC transporters family signature. 257310003494 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 257310003495 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 257310003496 metal binding site [ion binding]; metal-binding site 257310003497 putative dimer interface [polypeptide binding]; other site 257310003498 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 6.2e-70 257310003499 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 257310003500 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310003501 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310003502 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 5.5e-22 257310003503 allantoate amidohydrolase; Reviewed; Region: PRK12892 257310003504 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 257310003505 active site 257310003506 metal binding site [ion binding]; metal-binding site 257310003507 dimer interface [polypeptide binding]; other site 257310003508 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 8.8e-12 257310003509 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257310003510 Amidase; Region: Amidase; cl11426 257310003511 HMMPfam hit to PF01425, DE Amidase, score 8.2e-85 257310003512 PS00616 Histidine acid phosphatases phosphohistidine signature. 257310003513 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003514 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 257310003515 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 257310003516 active site 257310003517 catalytic site [active] 257310003518 tetramer interface [polypeptide binding]; other site 257310003519 HMMPfam hit to PF01522, DE Polysaccharide deacetylase, score 5.9e-05 257310003520 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 257310003521 ureidoglycolate hydrolase; Provisional; Region: PRK03606 257310003522 Signal peptide predicted for BB0697 by SignalP 2.0 HMM (Signal peptide probabilty 0.807) with cleavage site probability 0.350 between residues 32 and 33; signal peptide 257310003523 DctM-like transporters; Region: DctM; pfam06808 257310003524 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310003525 11 probable transmembrane helices predicted for BB0697 by TMHMM2.0 at aa 7-29, 49-71, 137-159, 174-196, 217-239, 244-266, 279-301, 311-333, 335-352, 362-384 and 397-419 257310003526 Signal peptide predicted for BB0698 by SignalP 2.0 HMM (Signal peptide probabilty 0.717) with cleavage site probability 0.564 between residues 22 and 23; signal peptide 257310003527 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310003528 4 probable transmembrane helices predicted for BB0698 by TMHMM2.0 at aa 21-40, 50-72, 96-118 and 142-164 257310003529 Signal peptide predicted for BB0699 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.796 between residues 24 and 25; signal peptide 257310003530 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310003531 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 3.6e-08 257310003532 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310003533 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310003534 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310003535 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 257310003536 putative dimerization interface [polypeptide binding]; other site 257310003537 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.2e-18 257310003538 Predicted helix-turn-helix motif with score 1277.000, SD 3.54 at aa 16-37, sequence HTTVGAARALQISQPAVSSAIR 257310003539 PS00044 Bacterial regulatory proteins, lysR family signature. 257310003540 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.6e-39 257310003541 Signal peptide predicted for BB0701 by SignalP 2.0 HMM (Signal peptide probabilty 0.807) with cleavage site probability 0.797 between residues 21 and 22; signal peptide 257310003542 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310003543 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310003544 FCD domain; Region: FCD; pfam07729 257310003545 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.7e-10 257310003546 Predicted helix-turn-helix motif with score 1509.000, SD 4.33 at aa 36-57, sequence LSQYELASEFGTSRTPIREALR 257310003547 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 257310003548 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 257310003549 4 probable transmembrane helices predicted for BB0704 by TMHMM2.0 at aa 24-46, 51-68, 89-111 and 139-156 257310003550 Signal peptide predicted for BB0705 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.797 between residues 37 and 38; signal peptide 257310003551 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 257310003552 DctM-like transporters; Region: DctM; pfam06808 257310003553 13 probable transmembrane helices predicted for BB0705 by TMHMM2.0 at aa 21-43, 58-80, 89-111, 115-137, 149-171, 191-213, 239-261, 266-288, 295-317, 337-355, 360-382, 387-409 and 421-443 257310003554 Signal peptide predicted for BB0706 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.952 between residues 34 and 35; signal peptide 257310003555 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310003556 1 probable transmembrane helix predicted for BB0706 by TMHMM2.0 at aa 12-34 257310003557 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 9e-53 257310003558 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003559 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 257310003560 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310003561 DNA-binding site [nucleotide binding]; DNA binding site 257310003562 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310003563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310003564 homodimer interface [polypeptide binding]; other site 257310003565 catalytic residue [active] 257310003566 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 8.6e-14 257310003567 PS00290 Immunoglobulins and major histocompatibility complex proteins signature. 257310003568 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 257310003569 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 257310003570 dimer interface [polypeptide binding]; other site 257310003571 active site 257310003572 glycine-pyridoxal phosphate binding site [chemical binding]; other site 257310003573 folate binding site [chemical binding]; other site 257310003574 HMMPfam hit to PF00464, DE Serine hydroxymethyltransferase, score 2.5e-240 257310003575 PS00096 Serine hydroxymethyltransferase pyridoxal-phosphate attachment site. 257310003576 Benzoate membrane transport protein; Region: BenE; pfam03594 257310003577 benzoate transporter; Region: benE; TIGR00843 257310003578 HMMPfam hit to PF03594, DE Benzoate membrane transport protein, score 3.5e-165 257310003579 11 probable transmembrane helices predicted for BB0709 by TMHMM2.0 at aa 13-35, 50-69, 76-95, 100-119, 126-148, 170-189, 212-234, 254-276, 297-319, 324-343 and 356-378 257310003580 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 257310003581 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 257310003582 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 257310003583 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 3.4e-08 257310003584 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310003585 HMMPfam hit to PF01799, DE [2Fe-2S] binding domain, score 6.7e-31 257310003586 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 257310003587 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310003588 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 257310003589 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310003590 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310003591 HMMPfam hit to PF01315, DE Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain, score 0.03 257310003592 HMMPfam hit to PF02738, DE Aldehyde oxidase and xanthine dehydrogenase, molybdopterin binding domain, score 3.2e-07 257310003593 Predicted helix-turn-helix motif with score 992.000, SD 2.57 at aa 408-429, sequence GTRENVARHLGLDIGAVTVHQT 257310003594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310003595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310003596 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310003597 putative dimerization interface [polypeptide binding]; other site 257310003598 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 5e-19 257310003599 Predicted helix-turn-helix motif with score 1614.000, SD 4.68 at aa 37-58, sequence GTLSAAAEALSLTQPAVTILLK 257310003600 PS00044 Bacterial regulatory proteins, lysR family signature. 257310003601 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.8e-45 257310003602 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310003603 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310003604 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310003605 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 5.3e-09 257310003606 Predicted helix-turn-helix motif with score 1328.000, SD 3.71 at aa 39-60, sequence LSLSELSERASLVPSTVLRLLA 257310003607 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 257310003608 active site 257310003609 catalytic residues [active] 257310003610 metal binding site [ion binding]; metal-binding site 257310003611 HMMPfam hit to PF00682, DE HMGL-like, score 8.7e-45 257310003612 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310003613 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310003614 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 2.3e-47 257310003615 Isochorismatase family; Region: Isochorismatase; pfam00857 257310003616 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 257310003617 catalytic triad [active] 257310003618 conserved cis-peptide bond; other site 257310003619 HMMPfam hit to PF00857, DE Isochorismatase family, score 3.7e-14 257310003620 Signal peptide predicted for BB0717 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.993 between residues 27 and 28; signal peptide 257310003621 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003622 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-73 257310003623 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 257310003624 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 257310003625 tetramer interface [polypeptide binding]; other site 257310003626 active site 257310003627 Mg2+/Mn2+ binding site [ion binding]; other site 257310003628 Signal peptide predicted for BB0719 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.887 between residues 23 and 24; signal peptide 257310003629 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310003630 1 probable transmembrane helix predicted for BB0719 by TMHMM2.0 at aa 5-27 257310003631 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 4.5e-09 257310003632 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310003633 4 probable transmembrane helices predicted for BB0720 by TMHMM2.0 at aa 29-51, 61-83, 96-118 and 140-162 257310003634 Signal peptide predicted for BB0721 by SignalP 2.0 HMM (Signal peptide probabilty 0.952) with cleavage site probability 0.208 between residues 63 and 64; signal peptide 257310003635 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310003636 DctM-like transporters; Region: DctM; pfam06808 257310003637 10 probable transmembrane helices predicted for BB0721 by TMHMM2.0 at aa 7-38, 58-80, 101-123, 143-165, 178-200, 220-242, 281-303, 323-345, 352-374 and 399-421 257310003638 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 257310003639 Strictosidine synthase; Region: Str_synth; pfam03088 257310003640 HMMPfam hit to PF03758, DE Senescence marker protein-30 (SMP-30), score 8.3e-07 257310003641 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 257310003642 Signal peptide predicted for BB0724 by SignalP 2.0 HMM (Signal peptide probabilty 0.646) with cleavage site probability 0.637 between residues 23 and 24; signal peptide 257310003643 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 257310003644 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310003645 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310003646 putative DNA binding site [nucleotide binding]; other site 257310003647 putative Zn2+ binding site [ion binding]; other site 257310003648 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310003649 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 6.1e-22 257310003650 Predicted helix-turn-helix motif with score 1719.000, SD 5.04 at aa 42-63, sequence LTASQLLQRVGLSRPTLYRLLY 257310003651 Signal peptide predicted for BB0726 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.720 between residues 26 and 27; signal peptide 257310003652 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003653 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310003654 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.7e-78 257310003655 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 257310003656 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310003657 catalytic loop [active] 257310003658 iron binding site [ion binding]; other site 257310003659 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 257310003660 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 257310003661 FAD binding pocket [chemical binding]; other site 257310003662 FAD binding motif [chemical binding]; other site 257310003663 phosphate binding motif [ion binding]; other site 257310003664 beta-alpha-beta structure motif; other site 257310003665 NAD binding pocket [chemical binding]; other site 257310003666 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 1.1e-08 257310003667 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310003668 HMMPfam hit to PF00970, DE Oxidoreductase FAD-binding domain, score 1.4e-17 257310003669 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 1.8e-23 257310003670 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 257310003671 iron-sulfur cluster [ion binding]; other site 257310003672 [2Fe-2S] cluster binding site [ion binding]; other site 257310003673 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 257310003674 beta subunit interface [polypeptide binding]; other site 257310003675 alpha subunit interface [polypeptide binding]; other site 257310003676 active site 257310003677 substrate binding site [chemical binding]; other site 257310003678 Fe binding site [ion binding]; other site 257310003679 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 7.7e-30 257310003680 PS00570 Bacterial ring hydroxylating dioxygenases alpha-subunit signature. 257310003681 HMMPfam hit to PF00848, DE Ring hydroxylating alpha subunit (catalytic domain), score 6.8e-52 257310003682 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 257310003683 classical (c) SDRs; Region: SDR_c; cd05233 257310003684 NAD(P) binding site [chemical binding]; other site 257310003685 active site 257310003686 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.1e-45 257310003687 PS00038 Myc-type, 'helix-loop-helix' dimerization domain signature. 257310003688 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 257310003689 inter-subunit interface; other site 257310003690 HMMPfam hit to PF00866, DE Ring hydroxylating beta subunit, score 4.5e-33 257310003691 hypothetical protein; Provisional; Region: PRK06126 257310003692 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257310003693 hypothetical protein; Provisional; Region: PRK07236 257310003694 HMMPfam hit to PF01494, DE FAD binding domain, score 2.3e-14 257310003695 HMMPfam hit to PF01360, DE Monooxygenase, score 8.7e-32 257310003696 Signal peptide predicted for BB0733 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.795 between residues 22 and 23; signal peptide 257310003697 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003698 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310003699 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.1e-101 257310003700 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit; Region: HpaG-N-term; TIGR02305 257310003701 PS00092 N-6 Adenine-specific DNA methylases signature. 257310003702 HMMPfam hit to PF01557, DE Fumarylacetoacetate (FAA) hydrolase family, score 3.6e-09 257310003703 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 257310003704 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 257310003705 HMMPfam hit to PF01557, DE Fumarylacetoacetate (FAA) hydrolase family, score 7.6e-69 257310003706 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 257310003707 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 257310003708 NAD binding site [chemical binding]; other site 257310003709 catalytic residues [active] 257310003710 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 6.1e-194 257310003711 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310003712 PS00070 Aldehyde dehydrogenases cysteine active site. 257310003713 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 257310003714 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 257310003715 putative active site [active] 257310003716 putative metal binding site [ion binding]; other site 257310003717 HMMPfam hit to PF02900, DE Catalytic LigB subunit of aromatic ring-opening dioxygenase, score 1.2e-55 257310003718 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 257310003719 putative substrate binding pocket [chemical binding]; other site 257310003720 trimer interface [polypeptide binding]; other site 257310003721 HMMPfam hit to PF02962, DE 5-carboxymethyl-2-hydroxymuconate isomerase, score 6e-09 257310003722 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 257310003723 HMMPfam hit to PF01689, DE Hydratase/decarboxylase, score 1e-111 257310003724 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 257310003725 HMMPfam hit to PF03328, DE HpcH/HpaI aldolase family, score 2.4e-144 257310003726 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 257310003727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310003728 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310003729 dimerization interface [polypeptide binding]; other site 257310003730 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 5.3e-10 257310003731 Predicted helix-turn-helix motif with score 1012.000, SD 2.63 at aa 7-28, sequence GGFRAAARALDVSQGGLTKSIA 257310003732 PS00044 Bacterial regulatory proteins, lysR family signature. 257310003733 PS00030 Eukaryotic RNA-binding region RNP-1 signature. 257310003734 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5.6e-29 257310003735 Signal peptide predicted for BB0742 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.968 between residues 22 and 23; signal peptide 257310003736 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003737 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2e-79 257310003738 hypothetical protein; Provisional; Region: PRK08266 257310003739 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310003740 PYR/PP interface [polypeptide binding]; other site 257310003741 dimer interface [polypeptide binding]; other site 257310003742 TPP binding site [chemical binding]; other site 257310003743 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310003744 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 257310003745 TPP-binding site [chemical binding]; other site 257310003746 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 2.2e-17 257310003747 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 3.7e-21 257310003748 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 1.2e-35 257310003749 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 257310003750 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310003751 NAD binding site [chemical binding]; other site 257310003752 catalytic residues [active] 257310003753 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 1.3e-127 257310003754 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310003755 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 257310003756 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 257310003757 substrate binding pocket [chemical binding]; other site 257310003758 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257310003759 PS01174 Lipolytic enzymes 'G-D-X-G' family, serine active site. 257310003760 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 257310003761 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310003762 non-specific DNA binding site [nucleotide binding]; other site 257310003763 salt bridge; other site 257310003764 sequence-specific DNA binding site [nucleotide binding]; other site 257310003765 Cupin domain; Region: Cupin_2; pfam07883 257310003766 HMMPfam hit to PF01381, DE Helix-turn-helix, score 1.5e-13 257310003767 Predicted helix-turn-helix motif with score 1212.000, SD 3.31 at aa 22-43, sequence ISLQTLAARSGVATGMLSQIER 257310003768 Signal peptide predicted for BB0747 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.912 between residues 30 and 31; signal peptide 257310003769 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003770 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.8e-88 257310003771 Signal peptide predicted for BB0748 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.627 between residues 17 and 18; signal peptide 257310003772 Signal peptide predicted for BB0749 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.823 between residues 26 and 27; signal peptide 257310003773 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310003774 enoyl-CoA hydratase; Provisional; Region: PRK09245 257310003775 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310003776 substrate binding site [chemical binding]; other site 257310003777 oxyanion hole (OAH) forming residues; other site 257310003778 trimer interface [polypeptide binding]; other site 257310003779 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 9.9e-51 257310003780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310003781 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 257310003782 NAD(P) binding site [chemical binding]; other site 257310003783 active site 257310003784 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 5.8e-55 257310003785 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310003786 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310003787 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310003788 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 9.8e-12 257310003789 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 257310003790 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310003791 acyl-activating enzyme (AAE) consensus motif; other site 257310003792 AMP binding site [chemical binding]; other site 257310003793 active site 257310003794 CoA binding site [chemical binding]; other site 257310003795 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310003796 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310003797 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 3.2e-16 257310003798 Predicted helix-turn-helix motif with score 1421.000, SD 4.03 at aa 36-57, sequence TSIDAVAQRLGSTKGRIYHHYR 257310003799 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310003800 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310003801 active site 257310003802 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.4e-59 257310003803 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 5.1e-27 257310003804 PS00072 Acyl-CoA dehydrogenases signature 1. 257310003805 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 2.2e-07 257310003806 Signal peptide predicted for BB0756 by SignalP 2.0 HMM (Signal peptide probabilty 0.985) with cleavage site probability 0.390 between residues 25 and 26; signal peptide 257310003807 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310003808 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310003809 TM-ABC transporter signature motif; other site 257310003810 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1e-05 257310003811 8 probable transmembrane helices predicted for BB0756 by TMHMM2.0 at aa 9-26, 30-52, 59-78, 83-105, 112-134, 164-179, 235-257 and 288-310 257310003812 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310003813 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310003814 TM-ABC transporter signature motif; other site 257310003815 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 5e-20 257310003816 7 probable transmembrane helices predicted for BB0757 by TMHMM2.0 at aa 12-34, 56-78, 91-113, 136-158, 188-207, 222-244 and 251-273 257310003817 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310003818 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310003819 Walker A/P-loop; other site 257310003820 ATP binding site [chemical binding]; other site 257310003821 Q-loop/lid; other site 257310003822 ABC transporter signature motif; other site 257310003823 Walker B; other site 257310003824 D-loop; other site 257310003825 H-loop/switch region; other site 257310003826 HMMPfam hit to PF00005, DE ABC transporter score 1.1e-37 257310003827 PS00211 ABC transporters family signature. 257310003828 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003829 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310003830 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310003831 Walker A/P-loop; other site 257310003832 ATP binding site [chemical binding]; other site 257310003833 Q-loop/lid; other site 257310003834 ABC transporter signature motif; other site 257310003835 Walker B; other site 257310003836 D-loop; other site 257310003837 H-loop/switch region; other site 257310003838 HMMPfam hit to PF00005, DE ABC transporter score 5e-10 257310003839 PS00211 ABC transporters family signature. 257310003840 Signal peptide predicted for BB0761 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.863 between residues 23 and 24; signal peptide 257310003841 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310003842 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 257310003843 ligand binding site [chemical binding]; other site 257310003844 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 0.053 257310003845 Signal peptide predicted for BB0762 by SignalP 2.0 HMM (Signal peptide probabilty 0.847) with cleavage site probability 0.456 between residues 27 and 28; signal peptide 257310003846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310003847 NAD(P) binding site [chemical binding]; other site 257310003848 active site 257310003849 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 8.5e-43 257310003850 PS00061 Short-chain dehydrogenases/reductases family signature. 257310003851 enoyl-CoA hydratase; Provisional; Region: PRK08252 257310003852 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310003853 substrate binding site [chemical binding]; other site 257310003854 oxyanion hole (OAH) forming residues; other site 257310003855 trimer interface [polypeptide binding]; other site 257310003856 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 8.4e-42 257310003857 PS00166 enoyl-CoA hydratase signature. 257310003858 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 257310003859 DUF35 OB-fold domain; Region: DUF35; pfam01796 257310003860 HMMPfam hit to PF01796, DE Domain of unknown function DUF35, score 4.7e-13 257310003861 thiolase; Provisional; Region: PRK06158 257310003862 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310003863 active site 257310003864 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 0.0047 257310003865 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310003866 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 257310003867 dimer interaction site [polypeptide binding]; other site 257310003868 substrate-binding tunnel; other site 257310003869 active site 257310003870 catalytic site [active] 257310003871 substrate binding site [chemical binding]; other site 257310003872 HMMPfam hit to PF01575, DE MaoC like domain, score 8.6e-28 257310003873 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 257310003874 NAD(P) binding site [chemical binding]; other site 257310003875 active site 257310003876 Signal peptide predicted for BB0768 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 22 and 23; signal peptide 257310003877 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310003878 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.4e-93 257310003879 Putative cyclase; Region: Cyclase; pfam04199 257310003880 Putative cyclase; Region: Cyclase; cl00814 257310003881 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310003882 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310003883 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310003884 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 4.3e-35 257310003885 Predicted helix-turn-helix motif with score 1120.000, SD 3.00 at aa 22-43, sequence MNLQEIARACGITSGSAQRVAY 257310003886 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310003887 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 0.00064 257310003888 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 257310003889 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 257310003890 active site 257310003891 dimer interface [polypeptide binding]; other site 257310003892 HMMPfam hit to PF01244, DE Renal dipeptidase, score 0.00011 257310003893 Signal peptide predicted for BB0773 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 26 and 27; signal peptide 257310003894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310003895 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310003896 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.2e-60 257310003897 Bacterial transcriptional activator domain; Region: BTAD; smart01043 257310003898 Predicted ATPase [General function prediction only]; Region: COG3899 257310003899 AAA ATPase domain; Region: AAA_16; pfam13191 257310003900 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 257310003901 TPR motif; other site 257310003902 Tetratricopeptide repeat; Region: TPR_12; pfam13424 257310003903 binding surface 257310003904 HMMPfam hit to PF00515, DE TPR Domain, score 1.1 257310003905 HMMPfam hit to PF00515, DE TPR Domain, score 8.8 257310003906 HMMPfam hit to PF00515, DE TPR Domain, score 22 257310003907 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003908 PS00215 Mitochondrial energy transfer proteins signature. 257310003909 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257310003910 Predicted helix-turn-helix motif with score 1506.000, SD 4.32 at aa 263-284, sequence FGYEAVCQRFALSRSTLFRLFK 257310003911 possible type II secretion system 257310003912 1 probable transmembrane helix predicted for BB0776 by TMHMM2.0 at aa 25-47 257310003913 PS00409 Prokaryotic N-terminal methylation site. 257310003914 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 257310003915 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 257310003916 1 probable transmembrane helix predicted for BB0777 by TMHMM2.0 at aa 13-35 257310003917 PS00409 Prokaryotic N-terminal methylation site. 257310003918 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003919 1 probable transmembrane helix predicted for BB0778 by TMHMM2.0 at aa 13-35 257310003920 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 257310003921 1 probable transmembrane helix predicted for BB0779 by TMHMM2.0 at aa 24-46 257310003922 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 257310003923 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 257310003924 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 257310003925 HMMPfam hit to PF00482, DE Bacterial type II secretion system protein F domain, score 3e-47 257310003926 4 probable transmembrane helices predicted for BB0780 by TMHMM2.0 at aa 177-199, 234-251, 271-293 and 383-405 257310003927 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 257310003928 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 257310003929 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 257310003930 Walker A motif; other site 257310003931 ATP binding site [chemical binding]; other site 257310003932 Walker B motif; other site 257310003933 HMMPfam hit to PF00437, DE Type II/IV secretion system protein, score 2.6e-91 257310003934 PS00662 Bacterial type II secretion system protein E signature. 257310003935 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003936 AAA domain; Region: AAA_22; pfam13401 257310003937 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 257310003938 HMMPfam hit to PF01471, DE peptidoglycan binding domain, score 1.8e-07 257310003939 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310003940 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003941 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 257310003942 1 probable transmembrane helix predicted for BB0783 by TMHMM2.0 at aa 38-60 257310003943 Signal peptide predicted for BB0784 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.730 between residues 22 and 23; signal peptide 257310003944 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 257310003945 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 257310003946 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00263, DE Bacterial type II and III secretion system protein, score 1.3e-45 257310003947 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310003948 1 probable transmembrane helix predicted for BB0785 by TMHMM2.0 at aa 21-43 257310003949 PS00409 Prokaryotic N-terminal methylation site. 257310003950 Signal peptide predicted for BB0786 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.904 between residues 32 and 33; signal peptide 257310003951 Signal peptide predicted for BB0787 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.425 between residues 24 and 25; signal peptide 257310003952 Signal peptide predicted for BB0789 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.429 between residues 34 and 35; signal peptide 257310003953 1 probable transmembrane helix predicted for BB0790 by TMHMM2.0 at aa 13-35 257310003954 PS00409 Prokaryotic N-terminal methylation site. 257310003955 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 257310003956 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 257310003957 Walker A motif; other site 257310003958 ATP binding site [chemical binding]; other site 257310003959 Walker B motif; other site 257310003960 HMMPfam hit to PF00437, DE Type II/IV secretion system protein, score 4.9e-27 257310003961 PS00662 Bacterial type II secretion system protein E signature. 257310003962 PS00017 ATP/GTP-binding site motif A (P-loop). 257310003963 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 257310003964 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 257310003965 HMMPfam hit to PF01478, DE Type IV leader peptidase family, score 1.1e-78 257310003966 5 probable transmembrane helices predicted for BB0792 by TMHMM2.0 at aa 10-32, 119-141, 175-197, 218-240 and 250-272 257310003967 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310003968 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 257310003969 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 257310003970 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 257310003971 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 257310003972 PS00435 Peroxidases proximal heme-ligand signature. 257310003973 Signal peptide predicted for BB0794 by SignalP 2.0 HMM (Signal peptide probabilty 0.718) with cleavage site probability 0.208 between residues 27 and 28; signal peptide 257310003974 1 probable transmembrane helix predicted for BB0794 by TMHMM2.0 at aa 5-27 257310003975 Signal peptide predicted for BB0795 by SignalP 2.0 HMM (Signal peptide probabilty 0.690) with cleavage site probability 0.455 between residues 38 and 39; signal peptide 257310003976 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 257310003977 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 257310003978 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 257310003979 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 2.1e-07 257310003980 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 0.061 257310003981 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 0.22 257310003982 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 1.5 257310003983 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 5.1e-05 257310003984 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 5.5e-09 257310003985 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 257310003986 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 257310003987 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 1e-05 257310003988 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 0.79 257310003989 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 0.00034 257310003990 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 0.0028 257310003991 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 5.2e-05 257310003992 HMMPfam hit to PF00805, DE Pentapeptide repeats (8 copies), score 0.039 257310003993 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 257310003994 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 257310003995 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 257310003996 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 257310003997 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 257310003998 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 257310003999 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 257310004000 Protein of unknown function (DUF877); Region: DUF877; pfam05943 257310004001 PS00213 Lipocalin signature. 257310004002 Protein of unknown function (DUF796); Region: DUF796; pfam05638 257310004003 ImpE protein; Region: ImpE; pfam07024 257310004004 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 257310004005 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 257310004006 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 257310004007 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 257310004008 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 257310004009 Signal peptide predicted for BB0809 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.635 between residues 21 and 22; signal peptide 257310004010 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; pfam09961 257310004011 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 257310004012 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310004013 Walker A motif; other site 257310004014 ATP binding site [chemical binding]; other site 257310004015 Walker B motif; other site 257310004016 arginine finger; other site 257310004017 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310004018 Walker A motif; other site 257310004019 ATP binding site [chemical binding]; other site 257310004020 Walker B motif; other site 257310004021 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 257310004022 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 8.4e-07 257310004023 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004024 PS00870 Chaperonins clpA/B signature 1. 257310004025 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004026 Signal peptide predicted for BB0812 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.813 between residues 27 and 28; signal peptide 257310004027 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004028 Signal peptide predicted for BB0813 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.607 between residues 34 and 35; signal peptide 257310004029 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 257310004030 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004031 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004032 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 257310004033 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 257310004034 hypothetical protein; Provisional; Region: PRK07033 257310004035 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 257310004036 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 257310004037 ligand binding site [chemical binding]; other site 257310004038 1 probable transmembrane helix predicted for BB0815 by TMHMM2.0 at aa 217-239 257310004039 HMMPfam hit to PF00691, DE OmpA family, score 6.2e-21 257310004040 Signal peptide predicted for BB0816 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.941 between residues 35 and 36; signal peptide 257310004041 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 257310004042 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 257310004043 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 257310004044 3 probable transmembrane helices predicted for BB0816 by TMHMM2.0 at aa 13-35, 46-65 and 460-482 257310004045 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004046 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 257310004047 1 probable transmembrane helix predicted for BB0818 by TMHMM2.0 at aa 228-250 257310004048 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 257310004049 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 257310004050 11 probable transmembrane helices predicted for BB0819 by TMHMM2.0 at aa 21-43, 47-69, 82-104, 119-138, 150-172, 182-201, 242-264, 268-290, 311-333, 337-359 and 368-387 257310004051 Signal peptide predicted for BB0820 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.663 between residues 33 and 34; signal peptide 257310004052 Uncharacterized conserved protein [Function unknown]; Region: COG5361 257310004053 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 257310004054 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 257310004055 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004056 Signal peptide predicted for BB0821 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 18 and 19; signal peptide 257310004057 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 257310004058 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310004059 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310004060 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 6.1e-22 257310004061 HMMPfam hit to PF03212, DE Pertactin, score 4.4e-09 257310004062 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 257310004063 putative active site [active] 257310004064 catalytic site [active] 257310004065 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 257310004066 PLD-like domain; Region: PLDc_2; pfam13091 257310004067 putative active site [active] 257310004068 catalytic site [active] 257310004069 HMMPfam hit to PF00614, DE Phospholipase D. Active site motif, score 0.33 257310004070 HMMPfam hit to PF00614, DE Phospholipase D. Active site motif, score 4.6e-05 257310004071 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 257310004072 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310004073 Walker A/P-loop; other site 257310004074 ATP binding site [chemical binding]; other site 257310004075 Q-loop/lid; other site 257310004076 ABC transporter signature motif; other site 257310004077 Walker B; other site 257310004078 D-loop; other site 257310004079 H-loop/switch region; other site 257310004080 TOBE domain; Region: TOBE; pfam03459 257310004081 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03459, DE TOBE domain, score 2.2e-11 257310004082 HMMPfam hit to PF00005, DE ABC transporter score 3e-48 257310004083 PS00211 ABC transporters family signature. 257310004084 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004085 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 257310004086 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310004087 dimer interface [polypeptide binding]; other site 257310004088 conserved gate region; other site 257310004089 putative PBP binding loops; other site 257310004090 ABC-ATPase subunit interface; other site 257310004091 5 probable transmembrane helices predicted for BB0824 by TMHMM2.0 at aa 15-37, 49-71, 86-108, 152-174 and 194-216 257310004092 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.9e-13 257310004093 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004094 Signal peptide predicted for BB0825 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.974 between residues 23 and 24; signal peptide 257310004095 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 257310004096 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 257310004097 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 257310004098 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 257310004099 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 4.5e-24 257310004100 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 257310004101 CGNR zinc finger; Region: zf-CGNR; pfam11706 257310004102 Signal peptide predicted for BB0828 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.890 between residues 21 and 22; signal peptide 257310004103 Signal peptide predicted for BB0829 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.991 between residues 21 and 22; signal peptide 257310004104 4 probable transmembrane helices predicted for BB0830 by TMHMM2.0 at aa 13-35, 45-67, 80-102 and 117-139 257310004105 Signal peptide predicted for BB0831 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.635 between residues 22 and 23; signal peptide 257310004106 Signal peptide predicted for BB0832 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.977 between residues 22 and 23; signal peptide 257310004107 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 257310004108 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310004109 N-terminal plug; other site 257310004110 ligand-binding site [chemical binding]; other site 257310004111 HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 1.7e-10 257310004112 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310004113 AsnC family; Region: AsnC_trans_reg; pfam01037 257310004114 HMMPfam hit to PF01037, DE AsnC family, score 8e-07 257310004115 Predicted helix-turn-helix motif with score 1449.000, SD 4.12 at aa 47-68, sequence LPTATLARQLHVSRGTVQNRMA 257310004116 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 257310004117 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310004118 inhibitor-cofactor binding pocket; inhibition site 257310004119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310004120 catalytic residue [active] 257310004121 HMMPfam hit to PF00202, DE Aminotransferase class-III, score 6.9e-161 257310004122 PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site. 257310004123 Arginase family; Region: Arginase; cd09989 257310004124 active site 257310004125 Mn binding site [ion binding]; other site 257310004126 oligomer interface [polypeptide binding]; other site 257310004127 HMMPfam hit to PF00491, DE Arginase family, score 3.5e-92 257310004128 PS00147 Arginase family signature 1. 257310004129 PS00148 Arginase family signature 2. 257310004130 PS01053 Arginase family signature 3. 257310004131 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310004132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 257310004133 active site 257310004134 intermolecular recognition site; other site 257310004135 dimerization interface [polypeptide binding]; other site 257310004136 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 257310004137 DNA binding site [nucleotide binding] 257310004138 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 0.00045 257310004139 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 0.022 257310004140 META domain; Region: META; pfam03724 257310004141 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004142 HMMPfam hit to PF03724, DE Domain of unknown function (306), score 5.8e-13 257310004143 Signal peptide predicted for BB0838 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.771 between residues 23 and 24; signal peptide 257310004144 META domain; Region: META; pfam03724 257310004145 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 257310004146 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004147 HMMPfam hit to PF03724, DE Domain of unknown function (306), score 2e-14 257310004148 rhodanese superfamily protein; Provisional; Region: PRK05320 257310004149 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 257310004150 active site residue [active] 257310004151 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 257310004152 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 257310004153 active site 257310004154 HIGH motif; other site 257310004155 KMSKS motif; other site 257310004156 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 257310004157 tRNA binding surface [nucleotide binding]; other site 257310004158 anticodon binding site; other site 257310004159 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 257310004160 dimer interface [polypeptide binding]; other site 257310004161 putative tRNA-binding site [nucleotide binding]; other site 257310004162 HMMPfam hit to PF01588, DE tRNA binding domain, score 4.4e-31 257310004163 HMMPfam hit to PF00133, DE tRNA synthetases class I (I, L, M and V), score 5.5e-06 257310004164 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310004165 Signal peptide predicted for BB0841 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.867 between residues 35 and 36; signal peptide 257310004166 1 probable transmembrane helix predicted for BB0841 by TMHMM2.0 at aa 20-42 257310004167 Domain of unknown function DUF59; Region: DUF59; cl00941 257310004168 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 257310004169 Walker A motif; other site 257310004170 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004171 PS01215 Mrp family signature. 257310004172 Signal peptide predicted for BB0843 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 22 and 23; signal peptide 257310004173 Surface antigen; Region: Bac_surface_Ag; pfam01103 257310004174 Signal peptide predicted for BB0844 by SignalP 2.0 HMM (Signal peptide probabilty 0.928) with cleavage site probability 0.359 between residues 26 and 27; signal peptide 257310004175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 257310004176 Family of unknown function (DUF490); Region: DUF490; pfam04357 257310004177 1 probable transmembrane helix predicted for BB0844 by TMHMM2.0 at aa 12-34 257310004178 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004179 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 257310004180 trimer interface [polypeptide binding]; other site 257310004181 active site 257310004182 HMMPfam hit to PF00692, DE dUTPase, score 0.0031 257310004183 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 257310004184 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310004185 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 257310004186 active site 257310004187 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 257310004188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310004189 Coenzyme A binding pocket [chemical binding]; other site 257310004190 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 3.5e-14 257310004191 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 257310004192 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 257310004193 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 257310004194 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310004195 catalytic residue [active] 257310004196 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 257310004197 HMMPfam hit to PF01276, DE Orn/Lys/Arg decarboxylase, major domain, score 3e-185 257310004198 PS00703 Orn/Lys/Arg decarboxylases family 1 pyridoxal-P attachment site. 257310004199 HMMPfam hit to PF03711, DE Orn/Lys/Arg decarboxylase, C-terminal domain, score 4.3e-30 257310004200 Signal peptide predicted for BB0851 by SignalP 2.0 HMM (Signal peptide probabilty 0.778) with cleavage site probability 0.687 between residues 29 and 30; signal peptide 257310004201 HI0933-like protein; Region: HI0933_like; pfam03486 257310004202 1 probable transmembrane helix predicted for BB0851 by TMHMM2.0 at aa 13-30 257310004203 HMMPfam hit to PF03486, DE HI0933-like protein, score 6.3e-131 257310004204 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 257310004205 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 257310004206 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 257310004207 HMMPfam hit to PF00081, DE Iron/manganese superoxide dismutases, alpha-hairpin domain, score 7.1e-44 257310004208 HMMPfam hit to PF02777, DE Iron/manganese superoxide dismutases, C-terminal domain, score 4.7e-61 257310004209 PS00088 Manganese and iron superoxide dismutases signature. 257310004210 Signal peptide predicted for BB0853 by SignalP 2.0 HMM (Signal peptide probabilty 0.982) with cleavage site probability 0.671 between residues 29 and 30; signal peptide 257310004211 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 257310004212 9 probable transmembrane helices predicted for BB0853 by TMHMM2.0 at aa 13-35, 45-67, 80-102, 107-129, 156-178, 188-210, 217-239, 244-266 and 273-292 257310004213 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004214 HMMPfam hit to PF02535, DE ZIP Zinc transporter score 3e-24 257310004215 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 257310004216 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 257310004217 HMMPfam hit to PF01571, DE Glycine cleavage T-protein (aminomethyl transferase), score 4.6e-118 257310004218 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 257310004219 lipoyl attachment site [posttranslational modification]; other site 257310004220 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01597, DE Glycine cleavage H-protein, score 1.1e-26 257310004221 glycine dehydrogenase; Provisional; Region: PRK05367 257310004222 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 257310004223 tetramer interface [polypeptide binding]; other site 257310004224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310004225 catalytic residue [active] 257310004226 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 257310004227 tetramer interface [polypeptide binding]; other site 257310004228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310004229 catalytic residue [active] 257310004230 HMMPfam hit to PF02347, DE Glycine cleavage system P-protein, score 3.2e-247 257310004231 Transcriptional regulators [Transcription]; Region: FadR; COG2186 257310004232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310004233 DNA-binding site [nucleotide binding]; DNA binding site 257310004234 FCD domain; Region: FCD; pfam07729 257310004235 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.2e-11 257310004236 Predicted helix-turn-helix motif with score 1063.000, SD 2.81 at aa 43-64, sequence PSERELTEETGLSRAAVRDALR 257310004237 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310004238 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310004239 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 6.3e-63 257310004240 Signal peptide predicted for BB0859 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 24 and 25; signal peptide 257310004241 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 257310004242 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310004243 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-72 257310004244 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310004245 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310004246 substrate binding site [chemical binding]; other site 257310004247 oxyanion hole (OAH) forming residues; other site 257310004248 trimer interface [polypeptide binding]; other site 257310004249 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 6.8e-45 257310004250 PS00166 enoyl-CoA hydratase signature. 257310004251 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 257310004252 Signal peptide predicted for BB0861 by SignalP 2.0 HMM (Signal peptide probabilty 0.721) with cleavage site probability 0.681 between residues 16 and 17; signal peptide 257310004253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 257310004254 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 257310004255 1 probable transmembrane helix predicted for BB0861 by TMHMM2.0 at aa 5-27 257310004256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 257310004257 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 257310004258 1 probable transmembrane helix predicted for BB0862 by TMHMM2.0 at aa 5-27 257310004259 Uncharacterized conserved protein [Function unknown]; Region: COG5476 257310004260 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 257310004261 MlrC C-terminus; Region: MlrC_C; pfam07171 257310004262 PS00307 Legume lectins beta-chain signature. 257310004263 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 257310004264 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310004265 Walker A/P-loop; other site 257310004266 ATP binding site [chemical binding]; other site 257310004267 Q-loop/lid; other site 257310004268 ABC transporter signature motif; other site 257310004269 Walker B; other site 257310004270 D-loop; other site 257310004271 H-loop/switch region; other site 257310004272 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310004273 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310004274 Walker A/P-loop; other site 257310004275 ATP binding site [chemical binding]; other site 257310004276 Q-loop/lid; other site 257310004277 ABC transporter signature motif; other site 257310004278 Walker B; other site 257310004279 D-loop; other site 257310004280 H-loop/switch region; other site 257310004281 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310004282 HMMPfam hit to PF00005, DE ABC transporter score 3.9e-65 257310004283 PS00211 ABC transporters family signature. 257310004284 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004285 HMMPfam hit to PF00005, DE ABC transporter score 2.4e-60 257310004286 PS00211 ABC transporters family signature. 257310004287 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004288 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 257310004289 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310004290 dimer interface [polypeptide binding]; other site 257310004291 conserved gate region; other site 257310004292 putative PBP binding loops; other site 257310004293 ABC-ATPase subunit interface; other site 257310004294 6 probable transmembrane helices predicted for BB0865 by TMHMM2.0 at aa 34-56, 102-124, 145-167, 187-209, 222-241 and 261-283 257310004295 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.0033 257310004296 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310004297 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310004298 Signal peptide predicted for BB0866 by SignalP 2.0 HMM (Signal peptide probabilty 0.916) with cleavage site probability 0.462 between residues 25 and 26; signal peptide 257310004299 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310004300 dimer interface [polypeptide binding]; other site 257310004301 conserved gate region; other site 257310004302 putative PBP binding loops; other site 257310004303 ABC-ATPase subunit interface; other site 257310004304 6 probable transmembrane helices predicted for BB0866 by TMHMM2.0 at aa 9-31, 100-122, 135-157, 177-199, 235-257 and 285-307 257310004305 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.031 257310004306 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310004307 PS00187 Thiamine pyrophosphate enzymes signature. 257310004308 Signal peptide predicted for BB0867 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.917 between residues 23 and 24; signal peptide 257310004309 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 257310004310 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257310004311 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 2.1e-20 257310004312 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 257310004313 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 257310004314 tetrameric interface [polypeptide binding]; other site 257310004315 NAD binding site [chemical binding]; other site 257310004316 catalytic residues [active] 257310004317 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 8.2e-167 257310004318 PS00070 Aldehyde dehydrogenases cysteine active site. 257310004319 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 257310004320 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310004321 inhibitor-cofactor binding pocket; inhibition site 257310004322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310004323 catalytic residue [active] 257310004324 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00202, DE Aminotransferase class-III, score 1.2e-124 257310004325 PS00599 Aminotransferases class-II pyridoxal-phosphate attachment site. 257310004326 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310004327 DNA-binding site [nucleotide binding]; DNA binding site 257310004328 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 257310004329 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310004330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310004331 homodimer interface [polypeptide binding]; other site 257310004332 catalytic residue [active] 257310004333 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.9e-10 257310004334 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 257310004335 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 257310004336 folate binding site [chemical binding]; other site 257310004337 NADP+ binding site [chemical binding]; other site 257310004338 HMMPfam hit to PF00186, DE Dihydrofolate reductase, score 1.5e-63 257310004339 PS00075 Dihydrofolate reductase signature. 257310004340 thymidylate synthase; Provisional; Region: thyA; PRK13821 257310004341 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 257310004342 dimerization interface [polypeptide binding]; other site 257310004343 active site 257310004344 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00303, DE Thymidylate synthase, score 3.3e-93 257310004345 OsmC-like protein; Region: OsmC; cl00767 257310004346 HMMPfam hit to PF02566, DE OsmC-like protein, score 2.6e-30 257310004347 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 257310004348 diiron binding motif [ion binding]; other site 257310004349 Region possibly encoding a lipopolysaccharide O-antigen 257310004350 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 257310004351 Mg++ binding site [ion binding]; other site 257310004352 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 257310004353 putative catalytic motif [active] 257310004354 11 probable transmembrane helices predicted for BB0875 by TMHMM2.0 at aa 4-26, 47-64, 68-90, 103-125, 131-153, 160-182, 186-208, 215-233, 237-259, 297-319 and 323-345 257310004355 HMMPfam hit to PF00953, DE Glycosyl transferase, score 6.1e-13 257310004356 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004357 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 257310004358 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 257310004359 NAD(P) binding site [chemical binding]; other site 257310004360 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 257310004361 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 257310004362 HMMPfam hit to PF03721, DE UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain, score 1.4e-73 257310004363 HMMPfam hit to PF00984, DE UDP-glucose/GDP-mannose dehydrogenase family, central domain, score 4.3e-44 257310004364 HMMPfam hit to PF03720, DE UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain, score 2.8e-31 257310004365 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 257310004366 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 257310004367 NAD binding site [chemical binding]; other site 257310004368 substrate binding site [chemical binding]; other site 257310004369 homodimer interface [polypeptide binding]; other site 257310004370 active site 257310004371 HMMPfam hit to PF01370, DE NAD dependent epimerase/dehydratase family, score 2e-115 257310004372 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 257310004373 11 probable transmembrane helices predicted for BB0878 by TMHMM2.0 at aa 21-38, 61-83, 104-123, 138-160, 195-217, 237-259, 280-302, 322-344, 363-385, 390-412 and 419-441 257310004374 HMMPfam hit to PF03023, DE Virulence factor MVIN, score 4.9e-07 257310004375 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310004376 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 257310004377 putative ADP-binding pocket [chemical binding]; other site 257310004378 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 1.4e-39 257310004379 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 257310004380 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 257310004381 active site 257310004382 dimer interface [polypeptide binding]; other site 257310004383 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 257310004384 Ligand Binding Site [chemical binding]; other site 257310004385 Molecular Tunnel; other site 257310004386 PS00443 Glutamine amidotransferases class-II active site. 257310004387 HMMPfam hit to PF00310, DE Glutamine amidotransferases class-II, score 8.9e-17 257310004388 HMMPfam hit to PF00733, DE Asparagine synthase, score 2.3e-53 257310004389 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 257310004390 putative ADP-binding pocket [chemical binding]; other site 257310004391 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310004392 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 3e-37 257310004393 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 257310004394 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 257310004395 putative ADP-binding pocket [chemical binding]; other site 257310004396 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 2.4e-25 257310004397 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 257310004398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310004399 putative ADP-binding pocket [chemical binding]; other site 257310004400 1 probable transmembrane helix predicted for BB0883 by TMHMM2.0 at aa 106-128 257310004401 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 3.3e-32 257310004402 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 257310004403 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 257310004404 active site 257310004405 dimer interface [polypeptide binding]; other site 257310004406 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 257310004407 dimer interface [polypeptide binding]; other site 257310004408 active site 257310004409 HMMPfam hit to PF00342, DE Phosphoglucose isomerase, score 1.2e-158 257310004410 PS00174 Phosphoglucose isomerase signature 2. 257310004411 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004412 PS00765 Phosphoglucose isomerase signature 1. 257310004413 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 257310004414 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 257310004415 active site 257310004416 substrate binding site [chemical binding]; other site 257310004417 metal binding site [ion binding]; metal-binding site 257310004418 HMMPfam hit to PF00408, DE Phosphoglucomutase/phosphomannomutase, C-terminal domain, score 4.7e-09 257310004419 HMMPfam hit to PF02880, DE Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III, score 5e-35 257310004420 HMMPfam hit to PF02879, DE Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II, score 5.3e-48 257310004421 HMMPfam hit to PF02878, DE Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I, score 1.8e-35 257310004422 PS00710 Phosphoglucomutase and phosphomannomutase phosphoserine signature. 257310004423 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257310004424 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 257310004425 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 257310004426 FAD binding domain; Region: FAD_binding_4; pfam01565 257310004427 HMMPfam hit to PF01565, DE FAD binding domain, score 7.4e-64 257310004428 HMMPfam hit to PF02913, DE FAD linked oxidases, C-terminal domain, score 3.5e-72 257310004429 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004430 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310004431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310004432 active site 257310004433 phosphorylation site [posttranslational modification] 257310004434 intermolecular recognition site; other site 257310004435 dimerization interface [polypeptide binding]; other site 257310004436 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310004437 DNA binding site [nucleotide binding] 257310004438 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 2.2e-29 257310004439 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 8.8e-13 257310004440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257310004441 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310004442 dimer interface [polypeptide binding]; other site 257310004443 phosphorylation site [posttranslational modification] 257310004444 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310004445 ATP binding site [chemical binding]; other site 257310004446 Mg2+ binding site [ion binding]; other site 257310004447 G-X-G motif; other site 257310004448 2 probable transmembrane helices predicted for BB0889 by TMHMM2.0 at aa 18-40 and 146-165 257310004449 HMMPfam hit to PF00672, DE HAMP domain, score 0.023 257310004450 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 0.0003 257310004451 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 2.7e-18 257310004452 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 257310004453 Sulfatase; Region: Sulfatase; pfam00884 257310004454 5 probable transmembrane helices predicted for BB0890 by TMHMM2.0 at aa 28-50, 70-92, 99-121, 151-173 and 186-205 257310004455 HMMPfam hit to PF00884, DE Sulfatase, score 4.3e-06 257310004456 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 257310004457 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 257310004458 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 257310004459 HMMPfam hit to PF01557, DE Fumarylacetoacetate (FAA) hydrolase family, score 5.9e-55 257310004460 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 257310004461 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 257310004462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310004463 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 257310004464 substrate binding pocket [chemical binding]; other site 257310004465 dimerization interface [polypeptide binding]; other site 257310004466 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 9e-19 257310004467 Predicted helix-turn-helix motif with score 2098.000, SD 6.33 at aa 22-43, sequence RSISAVARQLDLSQPAVSNALR 257310004468 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.4e-17 257310004469 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 257310004470 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 257310004471 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 257310004472 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 257310004473 HMMPfam hit to PF01360, DE Monooxygenase, score 1.7e-36 257310004474 HMMPfam hit to PF01494, DE FAD binding domain, score 7.5e-11 257310004475 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310004476 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 257310004477 HMMPfam hit to PF00753, DE Metallo-beta-lactamase superfamily, score 5.5e-11 257310004478 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 257310004479 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 257310004480 DNA binding site [nucleotide binding] 257310004481 catalytic residue [active] 257310004482 H2TH interface [polypeptide binding]; other site 257310004483 putative catalytic residues [active] 257310004484 turnover-facilitating residue; other site 257310004485 intercalation triad [nucleotide binding]; other site 257310004486 8OG recognition residue [nucleotide binding]; other site 257310004487 putative reading head residues; other site 257310004488 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 257310004489 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 257310004490 HMMPfam hit to PF01149, DE Formamidopyrimidine-DNA glycosylase, score 4.9e-73 257310004491 PS01242 Formamidopyrimidine-DNA glycosylase signature. 257310004492 Signal peptide predicted for BB0898 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.999 between residues 50 and 51; signal peptide 257310004493 TPR repeat; Region: TPR_11; pfam13414 257310004494 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 257310004495 binding surface 257310004496 TPR motif; other site 257310004497 TPR repeat; Region: TPR_11; pfam13414 257310004498 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310004499 HMMPfam hit to PF00515, DE TPR Domain, score 10 257310004500 HMMPfam hit to PF00515, DE TPR Domain, score 25 257310004501 HMMPfam hit to PF00515, DE TPR Domain, score 0.7 257310004502 HMMPfam hit to PF00515, DE TPR Domain, score 1.6 257310004503 HMMPfam hit to PF00515, DE TPR Domain, score 0.32 257310004504 Signal peptide predicted for BB0899 by SignalP 2.0 HMM (Signal peptide probabilty 0.796) with cleavage site probability 0.502 between residues 37 and 38; signal peptide 257310004505 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 257310004506 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 257310004507 1 probable transmembrane helix predicted for BB0899 by TMHMM2.0 at aa 13-32 257310004508 HMMPfam hit to PF03550, DE Outer membrane lipoprotein LolB, score 9.3e-09 257310004509 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004510 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 257310004511 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 257310004512 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 257310004513 HMMPfam hit to PF00288, DE GHMP kinases ATP-binding protein, score 3.3e-20 257310004514 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 257310004515 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 257310004516 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257310004517 active site 257310004518 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310004519 PS00114 Phosphoribosyl pyrophosphate synthetase signature. 257310004520 HMMPfam hit to PF00156, DE Phosphoribosyl transferase domain, score 2.9e-36 257310004521 PS00103 Purine/pyrimidine phosphoribosyl transferases signature. 257310004522 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 257310004523 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 257310004524 5S rRNA interface [nucleotide binding]; other site 257310004525 CTC domain interface [polypeptide binding]; other site 257310004526 L16 interface [polypeptide binding]; other site 257310004527 HMMPfam hit to PF01386, DE Ribosomal L25p family, score 2.4e-27 257310004528 PS00626 Regulator of chromosome condensation (RCC1) signature 2. 257310004529 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 257310004530 putative active site [active] 257310004531 catalytic residue [active] 257310004532 HMMPfam hit to PF01195, DE Peptidyl-tRNA hydrolase, score 6.1e-71 257310004533 PS01195 Peptidyl-tRNA hydrolase signature 1. 257310004534 PS01196 Peptidyl-tRNA hydrolase signature 2. 257310004535 5 probable transmembrane helices predicted for BB0904 by TMHMM2.0 at aa 59-81, 133-155, 176-195, 205-224 and 231-253 257310004536 HMMPfam hit to PF02517, DE CAAX amino terminal protease family, score 0.015 257310004537 GTP-binding protein YchF; Reviewed; Region: PRK09601 257310004538 YchF GTPase; Region: YchF; cd01900 257310004539 G1 box; other site 257310004540 GTP/Mg2+ binding site [chemical binding]; other site 257310004541 Switch I region; other site 257310004542 G2 box; other site 257310004543 Switch II region; other site 257310004544 G3 box; other site 257310004545 G4 box; other site 257310004546 G5 box; other site 257310004547 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 257310004548 PS00443 Glutamine amidotransferases class-II active site. 257310004549 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004550 Low %GC region. Unique relative to pertussis and parapertussis. In pertussis it is replaced with another low %GC region 257310004551 integrase; Provisional; Region: PRK09692 257310004552 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 257310004553 active site 257310004554 Int/Topo IB signature motif; other site 257310004555 HMMPfam hit to PF00589, DE Phage integrase family, score 2.4e-16 257310004556 Fic family protein [Function unknown]; Region: COG3177 257310004557 Fic/DOC family; Region: Fic; pfam02661 257310004558 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 257310004559 putative active site [active] 257310004560 catalytic site [active] 257310004561 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 257310004562 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 257310004563 ATP binding site [chemical binding]; other site 257310004564 putative Mg++ binding site [ion binding]; other site 257310004565 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 257310004566 nucleotide binding region [chemical binding]; other site 257310004567 ATP-binding site [chemical binding]; other site 257310004568 HMMPfam hit to PF00176, DE SNF2 family N-terminal domain, score 0.00014 257310004569 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 1.1e-08 257310004570 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 257310004571 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310004572 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 257310004573 Walker A motif; other site 257310004574 ATP binding site [chemical binding]; other site 257310004575 Walker B motif; other site 257310004576 arginine finger; other site 257310004577 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 1e-42 257310004578 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004579 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 257310004580 active site 257310004581 catalytic triad [active] 257310004582 HMMPfam hit to PF00082, DE Subtilase family, score 3.1e-06 257310004583 PS00136 Serine proteases, subtilase family, aspartic acid active site. 257310004584 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 257310004585 DNA methylase; Region: N6_N4_Mtase; pfam01555 257310004586 DNA methylase; Region: N6_N4_Mtase; cl17433 257310004587 PS00092 N-6 Adenine-specific DNA methylases signature. 257310004588 HMMPfam hit to PF01555, DE DNA methylase, score 3.2e-13 257310004589 Restriction endonuclease [Defense mechanisms]; Region: COG3587 257310004590 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 257310004591 ATP binding site [chemical binding]; other site 257310004592 Predicted helix-turn-helix motif with score 1076.000, SD 2.85 at aa 683-704, sequence GTLADLPDELKPHAAQVYQLID 257310004593 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 257310004594 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 257310004595 active site 257310004596 catalytic residues [active] 257310004597 Int/Topo IB signature motif; other site 257310004598 DNA binding site [nucleotide binding] 257310004599 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310004600 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310004601 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310004602 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310004603 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 8e-46 257310004604 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310004605 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310004606 DNA binding site [nucleotide binding] 257310004607 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 1.5e-09 257310004608 HMMPfam hit to PF00515, DE TPR Domain, score 0.027 257310004609 Signal peptide predicted for BB0918 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.955 between residues 23 and 24; signal peptide 257310004610 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310004611 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.6e-62 257310004612 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310004613 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310004614 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 7.9e-14 257310004615 PS01081 Bacterial regulatory proteins, tetR family signature. 257310004616 Predicted helix-turn-helix motif with score 1024.000, SD 2.67 at aa 34-55, sequence ATVKDIAQEAGVSAGLMYQYVP 257310004617 1 probable transmembrane helix predicted for BB0920 by TMHMM2.0 at aa 10-29 257310004618 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310004619 12 probable transmembrane helices predicted for BB0921 by TMHMM2.0 at aa 7-29, 34-56, 69-91, 95-117, 130-152, 162-184, 205-227, 237-259, 266-288, 298-320, 332-354 and 358-380 257310004620 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310004621 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310004622 DNA-binding site [nucleotide binding]; DNA binding site 257310004623 FCD domain; Region: FCD; cl11656 257310004624 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 4.8e-16 257310004625 PS00043 Bacterial regulatory proteins, gntR family signature. 257310004626 thiamine pyrophosphate protein; Validated; Region: PRK08199 257310004627 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310004628 PYR/PP interface [polypeptide binding]; other site 257310004629 dimer interface [polypeptide binding]; other site 257310004630 TPP binding site [chemical binding]; other site 257310004631 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310004632 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 257310004633 TPP-binding site [chemical binding]; other site 257310004634 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 2.8e-51 257310004635 PS00187 Thiamine pyrophosphate enzymes signature. 257310004636 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 1.8e-16 257310004637 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 5.9e-46 257310004638 Signal peptide predicted for BB0924 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.798 between residues 26 and 27; signal peptide 257310004639 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310004640 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-107 257310004641 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310004642 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 257310004643 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 257310004644 active site 257310004645 iron coordination sites [ion binding]; other site 257310004646 substrate binding pocket [chemical binding]; other site 257310004647 HMMPfam hit to PF02668, DE Taurine catabolism dioxygenase TauD, TfdA family, score 3.4e-57 257310004648 malic enzyme; Reviewed; Region: PRK12861 257310004649 Malic enzyme, N-terminal domain; Region: malic; pfam00390 257310004650 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 257310004651 putative NAD(P) binding site [chemical binding]; other site 257310004652 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 257310004653 HMMPfam hit to PF01515, DE Phosphate acetyl/butaryl transferase, score 4.7e-104 257310004654 HMMPfam hit to PF03949, DE Malic enzyme, NAD binding domain, score 1e-115 257310004655 HMMPfam hit to PF00390, DE Malic enzyme, N-terminal domain, score 1.3e-73 257310004656 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 257310004657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310004658 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310004659 dimerization interface [polypeptide binding]; other site 257310004660 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.9e-20 257310004661 Predicted helix-turn-helix motif with score 1636.000, SD 4.76 at aa 43-64, sequence GSLTRVAQQLSTSQPAVTNALA 257310004662 PS00044 Bacterial regulatory proteins, lysR family signature. 257310004663 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.1e-19 257310004664 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310004665 Signal peptide predicted for BB0928 by SignalP 2.0 HMM (Signal peptide probabilty 0.977) with cleavage site probability 0.590 between residues 39 and 40; signal peptide 257310004666 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310004667 dimer interface [polypeptide binding]; other site 257310004668 conserved gate region; other site 257310004669 putative PBP binding loops; other site 257310004670 ABC-ATPase subunit interface; other site 257310004671 6 probable transmembrane helices predicted for BB0928 by TMHMM2.0 at aa 9-31, 99-121, 134-156, 171-193, 239-261 and 281-303 257310004672 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.2e-06 257310004673 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310004674 Signal peptide predicted for BB0929 by SignalP 2.0 HMM (Signal peptide probabilty 0.747) with cleavage site probability 0.319 between residues 31 and 32; signal peptide 257310004675 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 257310004676 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310004677 dimer interface [polypeptide binding]; other site 257310004678 conserved gate region; other site 257310004679 putative PBP binding loops; other site 257310004680 ABC-ATPase subunit interface; other site 257310004681 5 probable transmembrane helices predicted for BB0929 by TMHMM2.0 at aa 15-37, 77-99, 109-131, 186-208 and 243-265 257310004682 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.3e-08 257310004683 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310004684 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 257310004685 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310004686 Walker A/P-loop; other site 257310004687 ATP binding site [chemical binding]; other site 257310004688 Q-loop/lid; other site 257310004689 ABC transporter signature motif; other site 257310004690 Walker B; other site 257310004691 D-loop; other site 257310004692 H-loop/switch region; other site 257310004693 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310004694 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310004695 Walker A/P-loop; other site 257310004696 ATP binding site [chemical binding]; other site 257310004697 Q-loop/lid; other site 257310004698 ABC transporter signature motif; other site 257310004699 Walker B; other site 257310004700 D-loop; other site 257310004701 H-loop/switch region; other site 257310004702 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 257310004703 HMMPfam hit to PF00005, DE ABC transporter score 1.3e-52 257310004704 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004705 PS00211 ABC transporters family signature. 257310004706 HMMPfam hit to PF00005, DE ABC transporter score 7e-58 257310004707 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004708 PS00211 ABC transporters family signature. 257310004709 Signal peptide predicted for BB0931 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.994 between residues 25 and 26; signal peptide 257310004710 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 257310004711 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 257310004712 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 4.3e-15 257310004713 Uncharacterized conserved protein [Function unknown]; Region: COG5476 257310004714 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 257310004715 MlrC C-terminus; Region: MlrC_C; pfam07171 257310004716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310004717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310004718 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310004719 dimerization interface [polypeptide binding]; other site 257310004720 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.2e-31 257310004721 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.3e-23 257310004722 Predicted helix-turn-helix motif with score 1700.000, SD 4.98 at aa 16-37, sequence GSLTLAAQKLHVAPSAVSRMVR 257310004723 Signal peptide predicted for BB0934 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.495 between residues 49 and 50; signal peptide 257310004724 1 probable transmembrane helix predicted for BB0934 by TMHMM2.0 at aa 31-48 257310004725 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 257310004726 putative hydrophobic ligand binding site [chemical binding]; other site 257310004727 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310004728 dimerization interface [polypeptide binding]; other site 257310004729 putative DNA binding site [nucleotide binding]; other site 257310004730 putative Zn2+ binding site [ion binding]; other site 257310004731 HMMPfam hit to PF01022, DE Bacterial regulatory protein, arsR family, score 1.1e-11 257310004732 Signal peptide predicted for BB0937 by SignalP 2.0 HMM (Signal peptide probabilty 0.978) with cleavage site probability 0.261 between residues 19 and 20; signal peptide 257310004733 AsmA family; Region: AsmA; pfam05170 257310004734 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 257310004735 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310004736 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 257310004737 Signal peptide predicted for BB0939 by SignalP 2.0 HMM (Signal peptide probabilty 0.678) with cleavage site probability 0.546 between residues 50 and 51; signal peptide 257310004738 Benzoate membrane transport protein; Region: BenE; pfam03594 257310004739 benzoate transporter; Region: benE; TIGR00843 257310004740 HMMPfam hit to PF03594, DE Benzoate membrane transport protein, score 5.2e-157 257310004741 11 probable transmembrane helices predicted for BB0939 by TMHMM2.0 at aa 21-43, 58-77, 84-103, 108-127, 139-161, 183-205, 226-248, 268-290, 303-325, 329-351 and 364-386 257310004742 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 257310004743 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.13 257310004744 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.00024 257310004745 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310004746 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 257310004747 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 257310004748 active site 257310004749 (T/H)XGH motif; other site 257310004750 HMMPfam hit to PF01467, DE Cytidylyltransferase, score 1.4e-38 257310004751 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 257310004752 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310004753 S-adenosylmethionine binding site [chemical binding]; other site 257310004754 HMMPfam hit to PF03602, DE Conserved hypothetical protein 95, score 1.4e-56 257310004755 PS00092 N-6 Adenine-specific DNA methylases signature. 257310004756 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 257310004757 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 257310004758 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 257310004759 HMMPfam hit to PF02881, DE SRP54-type protein, helical bundle domain, score 1.7e-11 257310004760 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00448, DE SRP54-type protein, GTPase domain, score 7.5e-97 257310004761 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004762 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 257310004763 putative active site [active] 257310004764 putative metal binding residues [ion binding]; other site 257310004765 signature motif; other site 257310004766 putative triphosphate binding site [ion binding]; other site 257310004767 CHAD domain; Region: CHAD; pfam05235 257310004768 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 257310004769 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310004770 dimer interface [polypeptide binding]; other site 257310004771 conserved gate region; other site 257310004772 ABC-ATPase subunit interface; other site 257310004773 5 probable transmembrane helices predicted for BB0945 by TMHMM2.0 at aa 25-42, 91-113, 134-156, 220-242 and 247-266 257310004774 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.00032 257310004775 Signal peptide predicted for BB0946 by SignalP 2.0 HMM (Signal peptide probabilty 0.950) with cleavage site probability 0.849 between residues 35 and 36; signal peptide 257310004776 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 257310004777 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310004778 dimer interface [polypeptide binding]; other site 257310004779 conserved gate region; other site 257310004780 ABC-ATPase subunit interface; other site 257310004781 7 probable transmembrane helices predicted for BB0946 by TMHMM2.0 at aa 13-35, 77-99, 112-131, 135-157, 178-200, 210-229 and 236-258 257310004782 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.00015 257310004783 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 257310004784 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 257310004785 Walker A/P-loop; other site 257310004786 ATP binding site [chemical binding]; other site 257310004787 Q-loop/lid; other site 257310004788 ABC transporter signature motif; other site 257310004789 Walker B; other site 257310004790 D-loop; other site 257310004791 H-loop/switch region; other site 257310004792 HMMPfam hit to PF00005, DE ABC transporter score 2.9e-55 257310004793 PS00211 ABC transporters family signature. 257310004794 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004795 Signal peptide predicted for BB0948 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.923 between residues 24 and 25; signal peptide 257310004796 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 257310004797 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310004798 substrate binding pocket [chemical binding]; other site 257310004799 membrane-bound complex binding site; other site 257310004800 hinge residues; other site 257310004801 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310004802 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310004803 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310004804 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 3.4e-12 257310004805 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 257310004806 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 257310004807 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 0.011 257310004808 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 257310004809 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 257310004810 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 257310004811 dimerization interface [polypeptide binding]; other site 257310004812 active site 257310004813 HMMPfam hit to PF00926, DE 3,4-dihydroxy-2-butanone 4-phosphate synthase, score 4e-111 257310004814 HMMPfam hit to PF00925, DE GTP cyclohydrolase II, score 9.2e-08 257310004815 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 257310004816 homopentamer interface [polypeptide binding]; other site 257310004817 active site 257310004818 HMMPfam hit to PF00885, DE 6,7-dimethyl-8-ribityllumazine synthase, score 1e-43 257310004819 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 257310004820 HMMPfam hit to PF01029, DE NusB family, score 7.1e-21 257310004821 thiamine monophosphate kinase; Provisional; Region: PRK05731 257310004822 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 257310004823 ATP binding site [chemical binding]; other site 257310004824 dimerization interface [polypeptide binding]; other site 257310004825 HMMPfam hit to PF02769, DE AIR synthase related protein, C-terminal domain, score 0.00078 257310004826 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 257310004827 tetramer interfaces [polypeptide binding]; other site 257310004828 binuclear metal-binding site [ion binding]; other site 257310004829 4 probable transmembrane helices predicted for BB0955 by TMHMM2.0 at aa 41-63, 70-92, 107-129 and 152-174 257310004830 Competence-damaged protein; Region: CinA; pfam02464 257310004831 HMMPfam hit to PF02464, DE Competence-damaged protein, score 2.9e-62 257310004832 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 257310004833 active site 257310004834 dimer interface [polypeptide binding]; other site 257310004835 HMMPfam hit to PF00215, DE Orotidine 5'-phosphate decarboxylase / HUMPS family, score 1.5e-36 257310004836 PS00156 Orotidine 5'-phosphate decarboxylase active site. 257310004837 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 257310004838 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310004839 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 1.3e-38 257310004840 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 257310004841 3 probable transmembrane helices predicted for BB0959 by TMHMM2.0 at aa 39-58, 65-87 and 109-131 257310004842 HMMPfam hit to PF01219, DE Prokaryotic diacylglycerol kinase, score 2.1e-33 257310004843 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 257310004844 HMMPfam hit to PF03631, DE Ribonuclease BN-like family, score 7.7e-80 257310004845 6 probable transmembrane helices predicted for BB0960 by TMHMM2.0 at aa 38-60, 99-121, 150-172, 187-209, 222-244 and 254-276 257310004846 ortholog of Bordetella pertussis (BX470248) BP3494;serum resistance protein (pseudogene) 257310004847 Signal peptide predicted for BB0961 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.649 between residues 42 and 43 257310004848 HMMPfam hit to PF03212, DE Pertactin, score 4.1e-71 257310004849 HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 6.7e-77 257310004850 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 257310004851 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 257310004852 ring oligomerisation interface [polypeptide binding]; other site 257310004853 ATP/Mg binding site [chemical binding]; other site 257310004854 stacking interactions; other site 257310004855 hinge regions; other site 257310004856 HMMPfam hit to PF00118, DE TCP-1/cpn60 chaperonin family, score 4.3e-196 257310004857 PS00296 Chaperonins cpn60 signature. 257310004858 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 257310004859 oligomerisation interface [polypeptide binding]; other site 257310004860 mobile loop; other site 257310004861 roof hairpin; other site 257310004862 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00166, DE Chaperonin 10 Kd subunit, score 2.5e-59 257310004863 PS00681 Chaperonins cpn10 signature. 257310004864 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 257310004865 PS00606 Beta-ketoacyl synthases active site. 257310004866 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 257310004867 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 257310004868 PS00133 Zinc carboxypeptidases, zinc-binding region 2 signature. 257310004869 Signal peptide predicted for BB0968 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.990 between residues 19 and 20; signal peptide 257310004870 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310004871 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.7e-84 257310004872 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310004873 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310004874 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310004875 dimerization interface [polypeptide binding]; other site 257310004876 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.8e-25 257310004877 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.5e-26 257310004878 PS00044 Bacterial regulatory proteins, lysR family signature. 257310004879 Predicted helix-turn-helix motif with score 1577.000, SD 4.56 at aa 46-67, sequence GHLTRAAERLRISQPAASHHLR 257310004880 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 257310004881 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 257310004882 Signal peptide predicted for BB0971 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.462 between residues 24 and 25; signal peptide 257310004883 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310004884 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.4e-81 257310004885 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310004886 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 257310004887 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310004888 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 2.4e-19 257310004889 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 257310004890 HMMPfam hit to PF02627, DE Carboxymuconolactone decarboxylase, score 2e-14 257310004891 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 257310004892 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257310004893 HMMPfam hit to PF03446, DE NAD binding domain of 6-phosphogluconate dehydrogenase, score 0.00032 257310004894 Isochorismatase family; Region: Isochorismatase; pfam00857 257310004895 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 257310004896 catalytic triad [active] 257310004897 dimer interface [polypeptide binding]; other site 257310004898 conserved cis-peptide bond; other site 257310004899 HMMPfam hit to PF00857, DE Isochorismatase family, score 1.3e-13 257310004900 Signal peptide predicted for BB0976 by SignalP 2.0 HMM (Signal peptide probabilty 0.942) with cleavage site probability 0.346 between residues 51 and 52; signal peptide 257310004901 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 257310004902 L-lactate permease; Region: Lactate_perm; cl00701 257310004903 L-lactate permease; Region: Lactate_perm; cl00701 257310004904 15 probable transmembrane helices predicted for BB0976 by TMHMM2.0 at aa 6-25, 38-60, 64-86, 106-123, 128-150, 155-177, 187-209, 216-238, 292-314, 323-345, 355-372, 392-414, 429-451, 488-510 and 520-542 257310004905 HMMPfam hit to PF02652, DE L-lactate permease, score 2.6e-23 257310004906 Signal peptide predicted for BB0977 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.478 between residues 55 and 56; signal peptide 257310004907 2 probable transmembrane helices predicted for BB0977 by TMHMM2.0 at aa 17-39 and 43-65 257310004908 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 257310004909 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 257310004910 HMMPfam hit to PF01019, DE Gamma-glutamyltranspeptidase, score 8.6e-163 257310004911 Signal peptide predicted for BB0979 by SignalP 2.0 HMM (Signal peptide probabilty 0.614) with cleavage site probability 0.554 between residues 21 and 22; signal peptide 257310004912 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 257310004913 Ligand Binding Site [chemical binding]; other site 257310004914 HMMPfam hit to PF00582, DE Universal stress protein family, score 5.4e-11 257310004915 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 257310004916 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 1.1e-18 257310004917 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310004918 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310004919 active site 257310004920 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 3.5e-34 257310004921 PS00073 Acyl-CoA dehydrogenases signature 2. 257310004922 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 9.1e-07 257310004923 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310004924 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310004925 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004926 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 5e-76 257310004927 Signal peptide predicted for BB0983 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.674 between residues 25 and 26; signal peptide 257310004928 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310004929 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-106 257310004930 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 257310004931 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310004932 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 257310004933 putative dimerization interface [polypeptide binding]; other site 257310004934 putative substrate binding pocket [chemical binding]; other site 257310004935 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3e-25 257310004936 Predicted helix-turn-helix motif with score 1071.000, SD 2.83 at aa 16-37, sequence LHFGRAARRLSISQPPLSFNIA 257310004937 PS00044 Bacterial regulatory proteins, lysR family signature. 257310004938 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3e-44 257310004939 Signal peptide predicted for BB0986 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.733 between residues 27 and 28; signal peptide 257310004940 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310004941 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.1e-64 257310004942 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 257310004943 7 probable transmembrane helices predicted for BB0987 by TMHMM2.0 at aa 13-35, 40-62, 93-112, 127-149, 162-184, 194-213 and 226-243 257310004944 Uncharacterized conserved protein [Function unknown]; Region: COG5476 257310004945 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 257310004946 MlrC C-terminus; Region: MlrC_C; pfam07171 257310004947 Signal peptide predicted for BB0989 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.969 between residues 30 and 31; signal peptide 257310004948 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310004949 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 8.4e-34 257310004950 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310004951 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310004952 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310004953 dimerization interface [polypeptide binding]; other site 257310004954 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 9.6e-24 257310004955 Predicted helix-turn-helix motif with score 1160.000, SD 3.14 at aa 16-37, sequence GSVSAAAVRLHMTQPPLSILLR 257310004956 PS00044 Bacterial regulatory proteins, lysR family signature. 257310004957 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2e-41 257310004958 PS00606 Beta-ketoacyl synthases active site. 257310004959 Signal peptide predicted for BB0991 by SignalP 2.0 HMM (Signal peptide probabilty 0.615) with cleavage site probability 0.524 between residues 20 and 21; signal peptide 257310004960 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310004961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310004962 metal binding site [ion binding]; metal-binding site 257310004963 active site 257310004964 I-site; other site 257310004965 HMMPfam hit to PF00990, DE GGDEF domain, score 3.9e-42 257310004966 7 probable transmembrane helices predicted for BB0991 by TMHMM2.0 at aa 5-27, 34-56, 66-85, 92-109, 119-141, 153-175 and 190-209 257310004967 Signal peptide predicted for BB0992 by SignalP 2.0 HMM (Signal peptide probabilty 0.990) with cleavage site probability 0.332 between residues 25 and 26; signal peptide 257310004968 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 257310004969 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 4e-06 257310004970 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 257310004971 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 1.2 257310004972 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310004973 hydroxyglutarate oxidase; Provisional; Region: PRK11728 257310004974 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 0.0047 257310004975 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 257310004976 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 257310004977 active site 257310004978 HMMPfam hit to PF01244, DE Renal dipeptidase, score 0.0014 257310004979 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 257310004980 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310004981 Walker A/P-loop; other site 257310004982 ATP binding site [chemical binding]; other site 257310004983 Q-loop/lid; other site 257310004984 ABC transporter signature motif; other site 257310004985 Walker B; other site 257310004986 D-loop; other site 257310004987 H-loop/switch region; other site 257310004988 TOBE domain; Region: TOBE_2; pfam08402 257310004989 HMMPfam hit to PF00005, DE ABC transporter score 4.2e-64 257310004990 PS00211 ABC transporters family signature. 257310004991 PS00017 ATP/GTP-binding site motif A (P-loop). 257310004992 Signal peptide predicted for BB0997 by SignalP 2.0 HMM (Signal peptide probabilty 0.878) with cleavage site probability 0.324 between residues 24 and 25; signal peptide 257310004993 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 257310004994 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310004995 putative PBP binding loops; other site 257310004996 ABC-ATPase subunit interface; other site 257310004997 6 probable transmembrane helices predicted for BB0997 by TMHMM2.0 at aa 5-27, 60-82, 95-117, 127-144, 181-203 and 225-247 257310004998 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 6e-11 257310004999 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 257310005000 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310005001 dimer interface [polypeptide binding]; other site 257310005002 conserved gate region; other site 257310005003 putative PBP binding loops; other site 257310005004 ABC-ATPase subunit interface; other site 257310005005 7 probable transmembrane helices predicted for BB0998 by TMHMM2.0 at aa 7-29, 65-87, 100-122, 148-170, 191-213, 218-237 and 249-271 257310005006 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 3.1e-08 257310005007 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 257310005008 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 257310005009 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 3.5e-08 257310005010 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 257310005011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005012 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 257310005013 putative dimerization interface [polypeptide binding]; other site 257310005014 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7.9e-48 257310005015 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.2e-20 257310005016 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005017 Predicted helix-turn-helix motif with score 1339.000, SD 3.75 at aa 16-37, sequence GSMTGAARIIHTTQPNISRLVS 257310005018 enoyl-CoA hydratase; Provisional; Region: PRK06494 257310005019 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310005020 substrate binding site [chemical binding]; other site 257310005021 oxyanion hole (OAH) forming residues; other site 257310005022 trimer interface [polypeptide binding]; other site 257310005023 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 8.5e-27 257310005024 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 257310005025 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310005026 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310005027 acyl-activating enzyme (AAE) consensus motif; other site 257310005028 AMP binding site [chemical binding]; other site 257310005029 active site 257310005030 CoA binding site [chemical binding]; other site 257310005031 HMMPfam hit to PF00501, DE AMP-binding protein, score 1.7e-111 257310005032 PS00455 AMP-binding domain signature. 257310005033 Signal peptide predicted for BB1003 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.987 between residues 22 and 23; signal peptide 257310005034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310005035 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.6e-60 257310005036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310005037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005038 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310005039 putative dimerization interface [polypeptide binding]; other site 257310005040 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 7.1e-23 257310005041 Predicted helix-turn-helix motif with score 1598.000, SD 4.63 at aa 23-44, sequence GSFGKAAEALSMTQGALSHLVQ 257310005042 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005043 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1e-36 257310005044 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 257310005045 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310005046 Walker A/P-loop; other site 257310005047 ATP binding site [chemical binding]; other site 257310005048 Q-loop/lid; other site 257310005049 ABC transporter signature motif; other site 257310005050 Walker B; other site 257310005051 D-loop; other site 257310005052 H-loop/switch region; other site 257310005053 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310005054 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310005055 Walker A/P-loop; other site 257310005056 ATP binding site [chemical binding]; other site 257310005057 Q-loop/lid; other site 257310005058 ABC transporter signature motif; other site 257310005059 Walker B; other site 257310005060 D-loop; other site 257310005061 H-loop/switch region; other site 257310005062 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310005063 HMMPfam hit to PF00005, DE ABC transporter score 5.2e-56 257310005064 PS00211 ABC transporters family signature. 257310005065 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005066 HMMPfam hit to PF00005, DE ABC transporter score 2.4e-47 257310005067 PS00211 ABC transporters family signature. 257310005068 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005069 Signal peptide predicted for BB1006 by SignalP 2.0 HMM (Signal peptide probabilty 0.607) with cleavage site probability 0.546 between residues 31 and 32; signal peptide 257310005070 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310005071 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310005072 dimer interface [polypeptide binding]; other site 257310005073 conserved gate region; other site 257310005074 putative PBP binding loops; other site 257310005075 ABC-ATPase subunit interface; other site 257310005076 5 probable transmembrane helices predicted for BB1006 by TMHMM2.0 at aa 15-34, 103-125, 140-162, 229-251 and 271-293 257310005077 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.7e-08 257310005078 Signal peptide predicted for BB1007 by SignalP 2.0 HMM (Signal peptide probabilty 0.980) with cleavage site probability 0.582 between residues 32 and 33; signal peptide 257310005079 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 257310005080 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310005081 dimer interface [polypeptide binding]; other site 257310005082 conserved gate region; other site 257310005083 putative PBP binding loops; other site 257310005084 ABC-ATPase subunit interface; other site 257310005085 4 probable transmembrane helices predicted for BB1007 by TMHMM2.0 at aa 12-31, 76-98, 119-141 and 237-259 257310005086 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.2e-06 257310005087 Signal peptide predicted for BB1008 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.884 between residues 34 and 35; signal peptide 257310005088 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 257310005089 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257310005090 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 9.3e-17 257310005091 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 257310005092 Sulfatase; Region: Sulfatase; cl17466 257310005093 Sulfatase; Region: Sulfatase; cl17466 257310005094 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 257310005095 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 257310005096 PS00133 Zinc carboxypeptidases, zinc-binding region 2 signature. 257310005097 HMMPfam hit to PF01663, DE Type I phosphodiesterase / nucleotide pyrophosphatase, score 0.063 257310005098 Signal peptide predicted for BB1011 by SignalP 2.0 HMM (Signal peptide probabilty 0.883) with cleavage site probability 0.539 between residues 25 and 26; signal peptide 257310005099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005100 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310005101 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310005102 dimerization interface [polypeptide binding]; other site 257310005103 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 8.1e-25 257310005104 Predicted helix-turn-helix motif with score 1942.000, SD 5.80 at aa 20-41, sequence GSYTAAAEELNVTHGAISRQVQ 257310005105 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005106 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6e-41 257310005107 ornithine cyclodeaminase; Validated; Region: PRK06141 257310005108 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 257310005109 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02423, DE Ornithine cyclodeaminase/mu-crystallin family, score 2.1e-49 257310005110 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 257310005111 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 257310005112 active site 257310005113 Zn binding site [ion binding]; other site 257310005114 HMMPfam hit to PF00850, DE Histone deacetylase family, score 1.8e-58 257310005115 tartrate dehydrogenase; Region: TTC; TIGR02089 257310005116 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 257310005117 HMMPfam hit to PF00180, DE Isocitrate/isopropylmalate dehydrogenase, score 1.6e-139 257310005118 PS00470 Isocitrate and isopropylmalate dehydrogenases signature. 257310005119 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 257310005120 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 257310005121 substrate binding site [chemical binding]; other site 257310005122 HMMPfam hit to PF00694, DE Aconitase C-terminal domain, score 3.5e-38 257310005123 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 257310005124 substrate binding site [chemical binding]; other site 257310005125 ligand binding site [chemical binding]; other site 257310005126 HMMPfam hit to PF00330, DE Aconitase family (aconitate hydratase), score 2.1e-167 257310005127 PS01244 Aconitase family signature 2. 257310005128 Signal peptide predicted for BB1017 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.803 between residues 34 and 35; signal peptide 257310005129 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 257310005130 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 257310005131 Signal peptide predicted for BB1018 by SignalP 2.0 HMM (Signal peptide probabilty 0.659) with cleavage site probability 0.566 between residues 21 and 22; signal peptide 257310005132 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310005133 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310005134 dimer interface [polypeptide binding]; other site 257310005135 conserved gate region; other site 257310005136 putative PBP binding loops; other site 257310005137 ABC-ATPase subunit interface; other site 257310005138 5 probable transmembrane helices predicted for BB1018 by TMHMM2.0 at aa 7-29, 67-89, 110-132, 181-203 and 215-237 257310005139 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.021 257310005140 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310005141 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310005142 Walker A/P-loop; other site 257310005143 ATP binding site [chemical binding]; other site 257310005144 Q-loop/lid; other site 257310005145 ABC transporter signature motif; other site 257310005146 Walker B; other site 257310005147 D-loop; other site 257310005148 H-loop/switch region; other site 257310005149 HMMPfam hit to PF00005, DE ABC transporter score 1.1e-59 257310005150 PS00211 ABC transporters family signature. 257310005151 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310005153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005154 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 257310005155 putative dimerization interface [polypeptide binding]; other site 257310005156 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7.1e-36 257310005157 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 7.3e-19 257310005158 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005159 Predicted helix-turn-helix motif with score 1276.000, SD 3.53 at aa 21-42, sequence RSLSKAAEREFIAPSALSKRIT 257310005160 Uncharacterized conserved protein [Function unknown]; Region: COG3339 257310005161 3 probable transmembrane helices predicted for BB1021 by TMHMM2.0 at aa 13-35, 40-62 and 86-108 257310005162 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 257310005163 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 257310005164 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 6e-06 257310005165 Signal peptide predicted for BB1023 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.967 between residues 27 and 28; signal peptide 257310005166 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310005167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005168 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 257310005169 putative dimerization interface [polypeptide binding]; other site 257310005170 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.1e-29 257310005171 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.3e-24 257310005172 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005173 Predicted helix-turn-helix motif with score 1539.000, SD 4.43 at aa 18-39, sequence GSLGRAATACGVTQPALSKSLQ 257310005174 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 257310005175 Sulfatase; Region: Sulfatase; pfam00884 257310005176 HMMPfam hit to PF00884, DE Sulfatase, score 5.7e-91 257310005177 Signal peptide predicted for BB1026 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.644 between residues 22 and 23; signal peptide 257310005178 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005179 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.5e-57 257310005180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310005181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005182 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 257310005183 putative dimerization interface [polypeptide binding]; other site 257310005184 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.6e-33 257310005185 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.1e-25 257310005186 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005187 Predicted helix-turn-helix motif with score 1097.000, SD 2.92 at aa 18-39, sequence GSISKAAGEVHVAQPALSLHMK 257310005188 Signal peptide predicted for BB1028 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.972 between residues 21 and 22; signal peptide 257310005189 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005190 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.4e-84 257310005191 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310005192 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310005193 substrate binding site [chemical binding]; other site 257310005194 oxyanion hole (OAH) forming residues; other site 257310005195 trimer interface [polypeptide binding]; other site 257310005196 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 7.4e-43 257310005197 PS00166 enoyl-CoA hydratase signature. 257310005198 Signal peptide predicted for BB1030 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.521 between residues 23 and 24; signal peptide 257310005199 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005200 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.7e-117 257310005201 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 257310005202 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257310005203 HMMPfam hit to PF02254, DE TrkA-N domain, score 0.015 257310005204 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 257310005205 HMMPfam hit to PF03328, DE HpcH/HpaI aldolase family, score 1.3e-08 257310005206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 257310005207 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 257310005208 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 257310005209 dimer interface [polypeptide binding]; other site 257310005210 active site 257310005211 catalytic residue [active] 257310005212 metal binding site [ion binding]; metal-binding site 257310005213 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00016, DE Ribulose bisphosphate carboxylase large chain, catalytic domain, score 7.2e-25 257310005214 PS00092 N-6 Adenine-specific DNA methylases signature. 257310005215 PS00157 Ribulose bisphosphate carboxylase large chain active site. 257310005216 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310005217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005218 The C-terminal substrate binding domain of LysR-type transcriptional regulator TrpI, which is involved in control of tryptophan synthesis, contains type 2 periplasmic binding fold; Region: PBP2_TrpI; cd08482 257310005219 putative dimerization interface [polypeptide binding]; other site 257310005220 putative substrate binding pocket [chemical binding]; other site 257310005221 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.2e-24 257310005222 Predicted helix-turn-helix motif with score 1675.000, SD 4.89 at aa 20-41, sequence GNMTRAAEELSVTHSAISKQVQ 257310005223 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005224 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1e-27 257310005225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310005226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005227 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 257310005228 putative dimerization interface [polypeptide binding]; other site 257310005229 putative substrate binding pocket [chemical binding]; other site 257310005230 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.2e-39 257310005231 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 5.6e-25 257310005232 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005233 Predicted helix-turn-helix motif with score 1193.000, SD 3.25 at aa 51-72, sequence LHFGRAARLCNISQPPFSVSIR 257310005234 enoyl-CoA hydratase; Provisional; Region: PRK06688 257310005235 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310005236 substrate binding site [chemical binding]; other site 257310005237 oxyanion hole (OAH) forming residues; other site 257310005238 trimer interface [polypeptide binding]; other site 257310005239 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 5.9e-40 257310005240 PS00166 enoyl-CoA hydratase signature. 257310005241 Signal peptide predicted for BB1039 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.574 between residues 23 and 24; signal peptide 257310005242 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005243 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.8e-69 257310005244 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310005245 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310005246 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.5e-69 257310005247 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310005248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005249 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310005250 dimerization interface [polypeptide binding]; other site 257310005251 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 0.00033 257310005252 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.5e-20 257310005253 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005254 Predicted helix-turn-helix motif with score 1539.000, SD 4.43 at aa 29-50, sequence ESFTQAAGTLGITQGAVSHHVA 257310005255 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 257310005256 Signal peptide predicted for BB1042 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 24 and 25; signal peptide 257310005257 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 257310005258 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 0.0013 257310005259 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 257310005260 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310005261 Walker A/P-loop; other site 257310005262 ATP binding site [chemical binding]; other site 257310005263 Q-loop/lid; other site 257310005264 ABC transporter signature motif; other site 257310005265 Walker B; other site 257310005266 D-loop; other site 257310005267 H-loop/switch region; other site 257310005268 TOBE domain; Region: TOBE_2; pfam08402 257310005269 HMMPfam hit to PF00005, DE ABC transporter score 1.4e-62 257310005270 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005271 PS00211 ABC transporters family signature. 257310005272 Signal peptide predicted for BB1044 by SignalP 2.0 HMM (Signal peptide probabilty 0.688) with cleavage site probability 0.559 between residues 41 and 42; signal peptide 257310005273 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 257310005274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310005275 dimer interface [polypeptide binding]; other site 257310005276 conserved gate region; other site 257310005277 putative PBP binding loops; other site 257310005278 ABC-ATPase subunit interface; other site 257310005279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310005280 dimer interface [polypeptide binding]; other site 257310005281 conserved gate region; other site 257310005282 putative PBP binding loops; other site 257310005283 ABC-ATPase subunit interface; other site 257310005284 13 probable transmembrane helices predicted for BB1044 by TMHMM2.0 at aa 12-34, 67-89, 101-123, 143-165, 193-215, 250-272, 300-322, 354-376, 388-407, 412-429, 465-487, 492-511 and 518-540 257310005285 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 6.8e-13 257310005286 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4.5e-06 257310005287 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310005288 aspartate aminotransferase; Provisional; Region: PRK05764 257310005289 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310005290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310005291 homodimer interface [polypeptide binding]; other site 257310005292 catalytic residue [active] 257310005293 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 8.7e-69 257310005294 PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site. 257310005295 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 257310005296 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 257310005297 tetramer interface [polypeptide binding]; other site 257310005298 active site 257310005299 Mg2+/Mn2+ binding site [ion binding]; other site 257310005300 Signal peptide predicted for BB1047 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.917 between residues 23 and 24; signal peptide 257310005301 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005302 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.1e-78 257310005303 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 257310005304 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 257310005305 HMMPfam hit to PF03328, DE HpcH/HpaI aldolase family, score 1.9e-20 257310005306 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_11; cd12175 257310005307 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 257310005308 putative ligand binding site [chemical binding]; other site 257310005309 putative NAD binding site [chemical binding]; other site 257310005310 catalytic site [active] 257310005311 HMMPfam hit to PF02826, DE D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain, score 4.6e-63 257310005312 PS00671 D-isomer specific 2-hydroxyacid dehydrogenases signature 3. 257310005313 PS00670 D-isomer specific 2-hydroxyacid dehydrogenases signature 2. 257310005314 HMMPfam hit to PF00389, DE D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain, score 1e-08 257310005315 Similar to Pseudomonas aeruginosa hypothetical protein Pa2886 SWALL:Q9HZW1 (EMBL:AE004714) (600 aa) fasta scores: E(): 2e-44, 35.52% id in 594 aa, and to Mycobacterium tuberculosis hypothetical protein rv0976c rv0976c or mtv044.04c or mt1003.1 SWALL:O86320 (EMBL:Z79700) (560 aa) fasta scores: E(): 2.7e-22, 31.77% id in 579 aa;conserved hypothetical protein (pseudogene) 257310005316 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005317 PS00962 Ribosomal protein S2 signature 1. 257310005318 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 257310005319 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 257310005320 active site 257310005321 iron coordination sites [ion binding]; other site 257310005322 substrate binding pocket [chemical binding]; other site 257310005323 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02668, DE Taurine catabolism dioxygenase TauD, TfdA family, score 1.8e-11 257310005324 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 257310005325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005326 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310005327 dimerization interface [polypeptide binding]; other site 257310005328 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 8.2e-17 257310005329 Predicted helix-turn-helix motif with score 1621.000, SD 4.71 at aa 16-37, sequence GSVTGAAHLLNVTQPAVSNVLR 257310005330 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 4.6e-39 257310005331 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 257310005332 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 257310005333 homodimer interface [polypeptide binding]; other site 257310005334 substrate-cofactor binding pocket; other site 257310005335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310005336 catalytic residue [active] 257310005337 HMMPfam hit to PF01053, DE Cys/Met metabolism PLP-dependent enzyme, score 3.7e-212 257310005338 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 257310005339 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 257310005340 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 257310005341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310005342 DNA-binding site [nucleotide binding]; DNA binding site 257310005343 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 257310005344 FCD domain; Region: FCD; pfam07729 257310005345 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.5e-12 257310005346 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310005347 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310005348 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 2.7e-66 257310005349 Signal peptide predicted for BB1060 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.853 between residues 25 and 26; signal peptide 257310005350 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310005351 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310005352 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 7.7e-65 257310005353 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310005354 4 probable transmembrane helices predicted for BB1061 by TMHMM2.0 at aa 17-36, 51-68, 93-115 and 130-152 257310005355 Signal peptide predicted for BB1062 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.506 between residues 21 and 22; signal peptide 257310005356 DctM-like transporters; Region: DctM; pfam06808 257310005357 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310005358 12 probable transmembrane helices predicted for BB1062 by TMHMM2.0 at aa 10-32, 44-66, 88-110, 131-153, 168-190, 210-232, 236-253, 266-288, 308-330, 337-359, 363-385 and 392-411 257310005359 HMMPfam hit to PF00597, DE DedA family, score 4.6e-19 257310005360 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 257310005361 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 257310005362 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 257310005363 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 6e-20 257310005364 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 257310005365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310005366 NAD(P) binding site [chemical binding]; other site 257310005367 active site 257310005368 HMMPfam hit to PF01370, DE NAD dependent epimerase/dehydratase family, score 1.8e-13 257310005369 PS00061 Short-chain dehydrogenases/reductases family signature. 257310005370 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310005371 EamA-like transporter family; Region: EamA; pfam00892 257310005372 10 probable transmembrane helices predicted for BB1066 by TMHMM2.0 at aa 12-34, 49-71, 84-103, 108-130, 137-155, 160-182, 194-216, 221-243, 250-272 and 276-295 257310005373 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 2.2e-11 257310005374 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310005375 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 1.9e-14 257310005376 Signal peptide predicted for BB1067 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.979 between residues 31 and 32; signal peptide 257310005377 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005378 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7.5e-71 257310005379 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310005380 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 257310005381 NAD(P) binding site [chemical binding]; other site 257310005382 catalytic residues [active] 257310005383 catalytic residues [active] 257310005384 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 2e-172 257310005385 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310005386 choline dehydrogenase; Validated; Region: PRK02106 257310005387 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 257310005388 HMMPfam hit to PF00732, DE GMC oxidoreductase, score 2.2e-145 257310005389 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310005390 PS00624 GMC oxidoreductases signature 2. 257310005391 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 257310005392 HMMPfam hit to PF00753, DE Metallo-beta-lactamase superfamily, score 2.6e-09 257310005393 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310005394 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310005395 putative PBP binding loops; other site 257310005396 dimer interface [polypeptide binding]; other site 257310005397 ABC-ATPase subunit interface; other site 257310005398 6 probable transmembrane helices predicted for BB1071 by TMHMM2.0 at aa 21-41, 51-73, 86-103, 113-135, 142-161 and 203-225 257310005399 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.0049 257310005400 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310005401 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310005402 Walker A/P-loop; other site 257310005403 ATP binding site [chemical binding]; other site 257310005404 Q-loop/lid; other site 257310005405 ABC transporter signature motif; other site 257310005406 Walker B; other site 257310005407 D-loop; other site 257310005408 H-loop/switch region; other site 257310005409 HMMPfam hit to PF00005, DE ABC transporter score 2e-59 257310005410 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005411 PS00211 ABC transporters family signature. 257310005412 Signal peptide predicted for BB1073 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 25 and 26; signal peptide 257310005413 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 257310005414 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310005415 substrate binding pocket [chemical binding]; other site 257310005416 membrane-bound complex binding site; other site 257310005417 transcriptional regulator NanR; Provisional; Region: PRK03837 257310005418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310005419 DNA-binding site [nucleotide binding]; DNA binding site 257310005420 FCD domain; Region: FCD; pfam07729 257310005421 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.1e-15 257310005422 PS00043 Bacterial regulatory proteins, gntR family signature. 257310005423 Predicted helix-turn-helix motif with score 1126.000, SD 3.02 at aa 38-59, sequence LIERDLCERLGVSRTSLREALR 257310005424 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 257310005425 HMMPfam hit to PF02627, DE Carboxymuconolactone decarboxylase, score 1e-22 257310005426 Amidohydrolase; Region: Amidohydro_2; pfam04909 257310005427 active site 257310005428 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 257310005429 Signal peptide predicted for BB1078 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.641 between residues 23 and 24; signal peptide 257310005430 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005431 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.5e-110 257310005432 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 257310005433 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310005434 catalytic site [active] 257310005435 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 1.3e-12 257310005436 Isochorismatase family; Region: Isochorismatase; pfam00857 257310005437 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 257310005438 catalytic triad [active] 257310005439 dimer interface [polypeptide binding]; other site 257310005440 conserved cis-peptide bond; other site 257310005441 HMMPfam hit to PF00857, DE Isochorismatase family, score 2.6e-15 257310005442 LysR family transcriptional regulator; Provisional; Region: PRK14997 257310005443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005444 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 257310005445 putative effector binding pocket; other site 257310005446 putative dimerization interface [polypeptide binding]; other site 257310005447 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2e-17 257310005448 Predicted helix-turn-helix motif with score 1337.000, SD 3.74 at aa 79-100, sequence GGFAQAGRLLNIPKSRLSRRVA 257310005449 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5.9e-40 257310005450 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 257310005451 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310005452 Coenzyme A binding pocket [chemical binding]; other site 257310005453 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 5.9e-13 257310005454 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310005455 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310005456 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.2e-69 257310005457 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310005458 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310005459 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 4.1e-12 257310005460 PS01081 Bacterial regulatory proteins, tetR family signature. 257310005461 Predicted helix-turn-helix motif with score 1720.000, SD 5.05 at aa 44-65, sequence ASLDDVARALHVSKPALYYYVK 257310005462 Signal peptide predicted for BB1085 by SignalP 2.0 HMM (Signal peptide probabilty 0.877) with cleavage site probability 0.872 between residues 32 and 33; signal peptide 257310005463 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 257310005464 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005465 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.8e-92 257310005466 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 257310005467 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310005468 active site 257310005469 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 2.9e-11 257310005470 PS00737 Thiolases signature 2. 257310005471 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 1.1e-09 257310005472 HMMPfam hit to PF00109, DE Beta-ketoacyl synthase, N-terminal domain, score 0.085 257310005473 enoyl-CoA hydratase; Provisional; Region: PRK06688 257310005474 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310005475 substrate binding site [chemical binding]; other site 257310005476 oxyanion hole (OAH) forming residues; other site 257310005477 trimer interface [polypeptide binding]; other site 257310005478 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005479 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 7.8e-49 257310005480 PS00166 enoyl-CoA hydratase signature. 257310005481 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 257310005482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310005483 NAD(P) binding site [chemical binding]; other site 257310005484 active site 257310005485 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 6.4e-75 257310005486 PS00061 Short-chain dehydrogenases/reductases family signature. 257310005487 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310005488 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310005489 substrate binding site [chemical binding]; other site 257310005490 oxyanion hole (OAH) forming residues; other site 257310005491 trimer interface [polypeptide binding]; other site 257310005492 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.3e-23 257310005493 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310005494 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310005495 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.5e-32 257310005496 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310005497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005498 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310005499 putative dimerization interface [polypeptide binding]; other site 257310005500 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 7.1e-20 257310005501 Predicted helix-turn-helix motif with score 1643.000, SD 4.78 at aa 18-39, sequence RSFTAAARAAFVTQSAVSKLCA 257310005502 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5.6e-42 257310005503 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310005504 Signal peptide predicted for BB1092 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 30 and 31; signal peptide 257310005505 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005506 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.9e-73 257310005507 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 257310005508 2 probable transmembrane helices predicted for BB1093 by TMHMM2.0 at aa 51-73 and 85-107 257310005509 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 257310005510 active site 257310005511 HMMPfam hit to PF03061, DE 4-hydroxybenzoyl-CoA thioesterase, score 0.0025 257310005512 Signal peptide predicted for BB1095 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.991 between residues 22 and 23; signal peptide 257310005513 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005514 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 8.7e-120 257310005515 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 257310005516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005517 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 257310005518 putative dimerization interface [polypeptide binding]; other site 257310005519 putative substrate binding pocket [chemical binding]; other site 257310005520 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03466, DE LysR substrate binding domain, score 8.8e-47 257310005521 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.7e-27 257310005522 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005523 Predicted helix-turn-helix motif with score 1461.000, SD 4.16 at aa 16-37, sequence LHFRRAAARLSISQPPLSHAIK 257310005524 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310005525 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310005526 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.1e-53 257310005527 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310005528 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310005529 active site 257310005530 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 1.7e-08 257310005531 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 4.7e-45 257310005532 PS00073 Acyl-CoA dehydrogenases signature 2. 257310005533 Signal peptide predicted for BB1099 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 28 and 29; signal peptide 257310005534 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005535 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.6e-95 257310005536 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 257310005537 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 257310005538 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257310005539 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 257310005540 Soluble P-type ATPase [General function prediction only]; Region: COG4087 257310005541 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 257310005542 HMMPfam hit to PF00690, DE Cation transporter/ATPase, N-terminus, score 1.6e-12 257310005543 HMMPfam hit to PF00122, DE E1-E2 ATPase, score 2.5e-74 257310005544 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 2.4e-16 257310005545 PS00154 E1-E2 ATPases phosphorylation site. 257310005546 5 probable transmembrane helices predicted for BB1100 by TMHMM2.0 at aa 730-752, 790-812, 822-841, 854-873 and 888-907 257310005547 Signal peptide predicted for BB1101 by SignalP 2.0 HMM (Signal peptide probabilty 0.973) with cleavage site probability 0.729 between residues 31 and 32; signal peptide 257310005548 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310005549 dimer interface [polypeptide binding]; other site 257310005550 phosphorylation site [posttranslational modification] 257310005551 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310005552 ATP binding site [chemical binding]; other site 257310005553 Mg2+ binding site [ion binding]; other site 257310005554 G-X-G motif; other site 257310005555 4 probable transmembrane helices predicted for BB1101 by TMHMM2.0 at aa 12-34, 39-56, 61-80 and 84-106 257310005556 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 1.5e-07 257310005557 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 1.4e-29 257310005558 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 257310005559 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310005560 active site 257310005561 phosphorylation site [posttranslational modification] 257310005562 intermolecular recognition site; other site 257310005563 dimerization interface [polypeptide binding]; other site 257310005564 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310005565 dimerization interface [polypeptide binding]; other site 257310005566 DNA binding residues [nucleotide binding] 257310005567 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.8e-29 257310005568 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 1.4e-13 257310005569 PS00622 Bacterial regulatory proteins, luxR family signature. 257310005570 Signal peptide predicted for BB1103 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 28 and 29; signal peptide 257310005571 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005572 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 9.4e-82 257310005573 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 257310005574 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 257310005575 [2Fe-2S] cluster binding site [ion binding]; other site 257310005576 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 257310005577 alpha subunit interface [polypeptide binding]; other site 257310005578 active site 257310005579 substrate binding site [chemical binding]; other site 257310005580 Fe binding site [ion binding]; other site 257310005581 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 2.9e-23 257310005582 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 257310005583 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310005584 catalytic loop [active] 257310005585 iron binding site [ion binding]; other site 257310005586 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 5.6e-05 257310005587 PS00814 Adrenodoxin family, iron-sulfur binding region signature. 257310005588 PS00190 Cytochrome c family heme-binding site signature. 257310005589 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 257310005590 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310005591 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 8.3e-69 257310005592 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 257310005593 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 257310005594 dimer interface [polypeptide binding]; other site 257310005595 active site 257310005596 catalytic residue [active] 257310005597 HMMPfam hit to PF00701, DE Dihydrodipicolinate synthetase family, score 3.1e-62 257310005598 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 257310005599 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 257310005600 phosphate binding site [ion binding]; other site 257310005601 HMMPfam hit to PF01070, DE FMN-dependent dehydrogenase, score 8.1e-151 257310005602 PS00557 FMN-dependent alpha-hydroxy acid dehydrogenases active site. 257310005603 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 257310005604 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 257310005605 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310005606 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310005607 Predicted helix-turn-helix motif with score 1780.000, SD 5.25 at aa 63-84, sequence ITLADIAKAAGMGRSAVQRVVY 257310005608 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 2.9e-38 257310005609 PS01051 Bacterial regulatory proteins, iclR family signature. 257310005610 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310005611 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005612 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310005613 dimerization interface [polypeptide binding]; other site 257310005614 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 5.8e-15 257310005615 Predicted helix-turn-helix motif with score 1628.000, SD 4.73 at aa 16-37, sequence GSFQKAADVHGLTQSAVTKIVR 257310005616 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005617 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.5e-27 257310005618 Signal peptide predicted for BB1113 by SignalP 2.0 HMM (Signal peptide probabilty 0.800) with cleavage site probability 0.507 between residues 24 and 25; signal peptide 257310005619 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 257310005620 classical (c) SDRs; Region: SDR_c; cd05233 257310005621 NAD(P) binding site [chemical binding]; other site 257310005622 active site 257310005623 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 9.3e-61 257310005624 PS00061 Short-chain dehydrogenases/reductases family signature. 257310005625 Signal peptide predicted for BB1114 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.987 between residues 27 and 28; signal peptide 257310005626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310005627 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7.3e-42 257310005628 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 257310005629 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 257310005630 Predicted amidohydrolase [General function prediction only]; Region: COG0388 257310005631 putative active site [active] 257310005632 catalytic triad [active] 257310005633 putative dimer interface [polypeptide binding]; other site 257310005634 HMMPfam hit to PF00795, DE Carbon-nitrogen hydrolase, score 4.9e-100 257310005635 PS00921 Nitrilases / cyanide hydratase active site signature. 257310005636 Cupin domain; Region: Cupin_2; pfam07883 257310005637 Signal peptide predicted for BB1118 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.844 between residues 22 and 23; signal peptide 257310005638 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005639 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 5.9e-87 257310005640 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 257310005641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005642 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 257310005643 dimerization interface [polypeptide binding]; other site 257310005644 substrate binding pocket [chemical binding]; other site 257310005645 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.7e-26 257310005646 Predicted helix-turn-helix motif with score 1428.000, SD 4.05 at aa 16-37, sequence LNFTRAAARCHIEQAPLSRAIK 257310005647 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005648 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 4.3e-52 257310005649 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 257310005650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310005651 active site 257310005652 phosphorylation site [posttranslational modification] 257310005653 intermolecular recognition site; other site 257310005654 dimerization interface [polypeptide binding]; other site 257310005655 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310005656 DNA binding residues [nucleotide binding] 257310005657 dimerization interface [polypeptide binding]; other site 257310005658 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 5.1e-15 257310005659 Predicted helix-turn-helix motif with score 1264.000, SD 3.49 at aa 162-183, sequence TRLTDIATQLIVSVKTISTYRQ 257310005660 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 2e-36 257310005661 Signal peptide predicted for BB1121 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.936 between residues 30 and 31; signal peptide 257310005662 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005663 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.1e-101 257310005664 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 257310005665 PAS domain; Region: PAS_9; pfam13426 257310005666 putative active site [active] 257310005667 heme pocket [chemical binding]; other site 257310005668 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 257310005669 Histidine kinase; Region: HisKA_3; pfam07730 257310005670 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310005671 ATP binding site [chemical binding]; other site 257310005672 Mg2+ binding site [ion binding]; other site 257310005673 G-X-G motif; other site 257310005674 HMMPfam hit to PF00989, DE PAS domain, score 8.1e-07 257310005675 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 4.5e-20 257310005676 enoyl-CoA hydratase; Provisional; Region: PRK06563 257310005677 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310005678 substrate binding site [chemical binding]; other site 257310005679 oxyanion hole (OAH) forming residues; other site 257310005680 trimer interface [polypeptide binding]; other site 257310005681 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.8e-25 257310005682 enoyl-CoA hydratase; Provisional; Region: PRK08290 257310005683 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310005684 substrate binding site [chemical binding]; other site 257310005685 oxyanion hole (OAH) forming residues; other site 257310005686 trimer interface [polypeptide binding]; other site 257310005687 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.3e-28 257310005688 AMP-binding domain protein; Validated; Region: PRK07529 257310005689 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310005690 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 257310005691 acyl-activating enzyme (AAE) consensus motif; other site 257310005692 putative AMP binding site [chemical binding]; other site 257310005693 putative active site [active] 257310005694 putative CoA binding site [chemical binding]; other site 257310005695 HMMPfam hit to PF00501, DE AMP-binding protein, score 6.6e-73 257310005696 PS00455 AMP-binding domain signature. 257310005697 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 257310005698 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 257310005699 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310005700 active site 257310005701 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 257310005702 PS00012 Phosphopantetheine attachment site. 257310005703 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 8.2e-45 257310005704 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 1.5e-13 257310005705 Predicted helix-turn-helix motif with score 1141.000, SD 3.07 at aa 345-366, sequence WSSSALALALDASQRSVQRALQ 257310005706 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 257310005707 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 257310005708 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 257310005709 hypothetical protein; Provisional; Region: PRK09040 257310005710 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 257310005711 ligand binding site [chemical binding]; other site 257310005712 HMMPfam hit to PF00691, DE OmpA family, score 2.3e-19 257310005713 1 probable transmembrane helix predicted for BB1130 by TMHMM2.0 at aa 15-37 257310005714 Signal peptide predicted for BB1131 by SignalP 2.0 HMM (Signal peptide probabilty 0.917) with cleavage site probability 0.505 between residues 28 and 29; signal peptide 257310005715 Domain of unknown function (DUF802); Region: DUF802; pfam05650 257310005716 3 probable transmembrane helices predicted for BB1131 by TMHMM2.0 at aa 5-27, 31-53 and 98-120 257310005717 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 257310005718 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 257310005719 putative catalytic residues [active] 257310005720 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 257310005721 dimerization interface [polypeptide binding]; other site 257310005722 metal binding site [ion binding]; metal-binding site 257310005723 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 257310005724 Signal peptide predicted for BB1136 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.785 between residues 37 and 38; signal peptide 257310005725 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 257310005726 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 257310005727 10 probable transmembrane helices predicted for BB1136 by TMHMM2.0 at aa 32-54, 67-86, 101-123, 135-157, 161-180, 211-233, 243-265, 278-297, 307-329 and 336-358 257310005728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 257310005729 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310005730 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310005731 DNA-binding site [nucleotide binding]; DNA binding site 257310005732 UTRA domain; Region: UTRA; pfam07702 257310005733 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.6e-22 257310005734 PS00043 Bacterial regulatory proteins, gntR family signature. 257310005735 Signal peptide predicted for BB1139 by SignalP 2.0 HMM (Signal peptide probabilty 0.986) with cleavage site probability 0.285 between residues 46 and 47; signal peptide 257310005736 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 257310005737 6 probable transmembrane helices predicted for BB1139 by TMHMM2.0 at aa 15-37, 44-66, 88-110, 161-183, 198-220 and 255-277 257310005738 HMMPfam hit to PF01925, DE Domain of unknown function DUF81, score 3.7e-23 257310005739 3 probable transmembrane helices predicted for BB1140 by TMHMM2.0 at aa 13-35, 50-69 and 76-95 257310005740 Transcriptional regulators [Transcription]; Region: FadR; COG2186 257310005741 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310005742 DNA-binding site [nucleotide binding]; DNA binding site 257310005743 FCD domain; Region: FCD; pfam07729 257310005744 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 8.8e-18 257310005745 Amidase; Region: Amidase; cl11426 257310005746 Amidase; Region: Amidase; cl11426 257310005747 HMMPfam hit to PF01425, DE Amidase, score 3.5e-40 257310005748 PS00571 Amidases signature. 257310005749 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310005750 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310005751 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 2.6e-68 257310005752 enoyl-CoA hydratase; Provisional; Region: PRK06127 257310005753 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310005754 substrate binding site [chemical binding]; other site 257310005755 oxyanion hole (OAH) forming residues; other site 257310005756 trimer interface [polypeptide binding]; other site 257310005757 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 2.3e-34 257310005758 PS00166 enoyl-CoA hydratase signature. 257310005759 Signal peptide predicted for BB1145 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.607 between residues 22 and 23; signal peptide 257310005760 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 257310005761 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 257310005762 substrate binding pocket [chemical binding]; other site 257310005763 membrane-bound complex binding site; other site 257310005764 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310005765 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310005766 dimer interface [polypeptide binding]; other site 257310005767 conserved gate region; other site 257310005768 putative PBP binding loops; other site 257310005769 ABC-ATPase subunit interface; other site 257310005770 6 probable transmembrane helices predicted for BB1146 by TMHMM2.0 at aa 30-52, 67-89, 96-118, 146-168, 208-230 and 250-272 257310005771 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4e-16 257310005772 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310005773 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310005774 Walker A/P-loop; other site 257310005775 ATP binding site [chemical binding]; other site 257310005776 Q-loop/lid; other site 257310005777 ABC transporter signature motif; other site 257310005778 Walker B; other site 257310005779 D-loop; other site 257310005780 H-loop/switch region; other site 257310005781 HMMPfam hit to PF00005, DE ABC transporter score 5.4e-58 257310005782 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005783 PS00211 ABC transporters family signature. 257310005784 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 257310005785 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 257310005786 putative active site [active] 257310005787 putative catalytic site [active] 257310005788 short chain dehydrogenase; Provisional; Region: PRK06125 257310005789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310005790 NAD(P) binding site [chemical binding]; other site 257310005791 active site 257310005792 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.6e-40 257310005793 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310005794 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310005795 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310005796 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 7.3e-09 257310005797 Signal peptide predicted for BB1151 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.857 between residues 28 and 29; signal peptide 257310005798 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257310005799 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 257310005800 ligand binding site [chemical binding]; other site 257310005801 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 0.039 257310005802 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 257310005803 active site 257310005804 catalytic site [active] 257310005805 HMMPfam hit to PF01575, DE MaoC like domain, score 3.3e-11 257310005806 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 257310005807 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 257310005808 active site 257310005809 acyl-activating enzyme (AAE) consensus motif; other site 257310005810 putative CoA binding site [chemical binding]; other site 257310005811 AMP binding site [chemical binding]; other site 257310005812 HMMPfam hit to PF00501, DE AMP-binding protein, score 4e-92 257310005813 3 probable transmembrane helices predicted for BB1153 by TMHMM2.0 at aa 95-117, 207-226 and 241-263 257310005814 PS00455 AMP-binding domain signature. 257310005815 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 257310005816 homotrimer interaction site [polypeptide binding]; other site 257310005817 putative active site [active] 257310005818 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 5.1e-21 257310005819 Signal peptide predicted for BB1155 by SignalP 2.0 HMM (Signal peptide probabilty 0.916) with cleavage site probability 0.513 between residues 17 and 18; signal peptide 257310005820 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310005821 TM-ABC transporter signature motif; other site 257310005822 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.1e-20 257310005823 8 probable transmembrane helices predicted for BB1155 by TMHMM2.0 at aa 5-27, 61-83, 90-112, 135-157, 183-205, 215-234, 236-258 and 263-285 257310005824 Signal peptide predicted for BB1156 by SignalP 2.0 HMM (Signal peptide probabilty 0.935) with cleavage site probability 0.742 between residues 21 and 22; signal peptide 257310005825 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310005826 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310005827 TM-ABC transporter signature motif; other site 257310005828 9 probable transmembrane helices predicted for BB1156 by TMHMM2.0 at aa 7-24, 28-50, 55-74, 78-100, 107-126, 149-171, 207-229, 244-266 and 273-292 257310005829 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 4.5e-15 257310005830 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310005831 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310005832 Walker A/P-loop; other site 257310005833 ATP binding site [chemical binding]; other site 257310005834 Q-loop/lid; other site 257310005835 ABC transporter signature motif; other site 257310005836 Walker B; other site 257310005837 D-loop; other site 257310005838 H-loop/switch region; other site 257310005839 HMMPfam hit to PF00005, DE ABC transporter score 3.6e-44 257310005840 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005841 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310005842 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310005843 Walker A/P-loop; other site 257310005844 ATP binding site [chemical binding]; other site 257310005845 Q-loop/lid; other site 257310005846 ABC transporter signature motif; other site 257310005847 Walker B; other site 257310005848 D-loop; other site 257310005849 H-loop/switch region; other site 257310005850 HMMPfam hit to PF00005, DE ABC transporter score 2.5e-49 257310005851 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005852 PS00211 ABC transporters family signature. 257310005853 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 257310005854 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 257310005855 active site 257310005856 FMN binding site [chemical binding]; other site 257310005857 substrate binding site [chemical binding]; other site 257310005858 homotetramer interface [polypeptide binding]; other site 257310005859 catalytic residue [active] 257310005860 HMMPfam hit to PF00724, DE NADH:flavin oxidoreductase / NADH oxidase family, score 1.3e-52 257310005861 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005862 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310005863 dimerization interface [polypeptide binding]; other site 257310005864 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.5e-31 257310005865 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.2e-22 257310005866 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005867 Predicted helix-turn-helix motif with score 1694.000, SD 4.96 at aa 21-42, sequence GNFTRASEHLHLTQSTVSQHVI 257310005868 Signal peptide predicted for BB1161 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.458 between residues 33 and 34; signal peptide 257310005869 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 257310005870 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 257310005871 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 257310005872 HMMPfam hit to PF00023, DE Ankyrin repeat, score 7.4e-07 257310005873 HMMPfam hit to PF00023, DE Ankyrin repeat, score 1e-05 257310005874 HMMPfam hit to PF00023, DE Ankyrin repeat, score 0.022 257310005875 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 257310005876 nucleoside/Zn binding site; other site 257310005877 dimer interface [polypeptide binding]; other site 257310005878 catalytic motif [active] 257310005879 HMMPfam hit to PF00383, DE Cytidine and deoxycytidylate deaminase zinc-binding region, score 3.7e-26 257310005880 PS00903 Cytidine and deoxycytidylate deaminases zinc-binding region signature. 257310005881 putative cyanate transporter; Provisional; Region: cynX; PRK09705 257310005882 12 probable transmembrane helices predicted for BB1163 by TMHMM2.0 at aa 12-31, 46-68, 81-100, 104-126, 133-155, 170-192, 213-235, 250-270, 277-296, 300-322, 335-357 and 361-383 257310005883 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0039 257310005884 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310005885 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310005886 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 257310005887 dimerization interface [polypeptide binding]; other site 257310005888 substrate binding pocket [chemical binding]; other site 257310005889 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.6e-31 257310005890 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1e-20 257310005891 PS00044 Bacterial regulatory proteins, lysR family signature. 257310005892 Predicted helix-turn-helix motif with score 2287.000, SD 6.98 at aa 20-41, sequence CSITEAAAELCVTPSAVSRQIR 257310005893 Signal peptide predicted for BB1165 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.835 between residues 23 and 24; signal peptide 257310005894 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005895 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.7e-92 257310005896 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257310005897 Amidase; Region: Amidase; cl11426 257310005898 HMMPfam hit to PF01425, DE Amidase, score 6.9e-45 257310005899 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005900 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 257310005901 Lumazine binding domain; Region: Lum_binding; pfam00677 257310005902 Lumazine binding domain; Region: Lum_binding; pfam00677 257310005903 HMMPfam hit to PF00677, DE Lumazine binding domain, score 3.4e-12 257310005904 HMMPfam hit to PF00677, DE Lumazine binding domain, score 1.6e-18 257310005905 PS00693 Riboflavin synthase alpha chain family signature. 257310005906 Signal peptide predicted for BB1168 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.932 between residues 43 and 44; signal peptide 257310005907 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310005908 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 9.8e-115 257310005909 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310005910 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310005911 putative DNA binding site [nucleotide binding]; other site 257310005912 putative Zn2+ binding site [ion binding]; other site 257310005913 AsnC family; Region: AsnC_trans_reg; pfam01037 257310005914 Predicted helix-turn-helix motif with score 1002.000, SD 2.60 at aa 18-39, sequence TPIQSIADQVSLSTTPCWRRVQ 257310005915 HMMPfam hit to PF01037, DE AsnC family, score 5.2e-37 257310005916 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 257310005917 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 257310005918 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310005919 acyl-activating enzyme (AAE) consensus motif; other site 257310005920 AMP binding site [chemical binding]; other site 257310005921 active site 257310005922 CoA binding site [chemical binding]; other site 257310005923 HMMPfam hit to PF00501, DE AMP-binding protein, score 6.1e-111 257310005924 PS00455 AMP-binding domain signature. 257310005925 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 257310005926 putative active site [active] 257310005927 Zn binding site [ion binding]; other site 257310005928 Signal peptide predicted for BB1173 by SignalP 2.0 HMM (Signal peptide probabilty 0.965) with cleavage site probability 0.528 between residues 27 and 28; signal peptide 257310005929 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310005930 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310005931 dimer interface [polypeptide binding]; other site 257310005932 conserved gate region; other site 257310005933 putative PBP binding loops; other site 257310005934 ABC-ATPase subunit interface; other site 257310005935 6 probable transmembrane helices predicted for BB1173 by TMHMM2.0 at aa 7-29, 63-85, 98-120, 125-147, 178-200 and 220-242 257310005936 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310005937 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310005938 Walker A/P-loop; other site 257310005939 ATP binding site [chemical binding]; other site 257310005940 Q-loop/lid; other site 257310005941 ABC transporter signature motif; other site 257310005942 Walker B; other site 257310005943 D-loop; other site 257310005944 H-loop/switch region; other site 257310005945 HMMPfam hit to PF00005, DE ABC transporter score 2.6e-48 257310005946 PS00211 ABC transporters family signature. 257310005947 PS00017 ATP/GTP-binding site motif A (P-loop). 257310005948 Signal peptide predicted for BB1175 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.990 between residues 27 and 28; signal peptide 257310005949 NMT1/THI5 like; Region: NMT1; pfam09084 257310005950 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310005951 substrate binding pocket [chemical binding]; other site 257310005952 membrane-bound complex binding site; other site 257310005953 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 257310005954 CoenzymeA binding site [chemical binding]; other site 257310005955 subunit interaction site [polypeptide binding]; other site 257310005956 PHB binding site; other site 257310005957 HMMPfam hit to PF02584, DE Uncharacterized protein PaaI, COG2050, score 2.6e-05 257310005958 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 257310005959 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 257310005960 NAD(P) binding site [chemical binding]; other site 257310005961 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 2.5e-86 257310005962 PS01162 Quinone oxidoreductase / zeta-crystallin signature. 257310005963 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 257310005964 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 257310005965 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 257310005966 metal-binding site [ion binding] 257310005967 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 257310005968 metal-binding site [ion binding] 257310005969 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 257310005970 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257310005971 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 257310005972 HMMPfam hit to PF00403, DE Heavy-metal-associated domain, score 1e-14 257310005973 HMMPfam hit to PF00403, DE Heavy-metal-associated domain, score 2.3e-26 257310005974 PS01047 Heavy-metal-associated domain. 257310005975 8 probable transmembrane helices predicted for BB1180 by TMHMM2.0 at aa 151-173, 188-207, 224-246, 251-268, 405-427, 432-454, 748-770 and 774-796 257310005976 HMMPfam hit to PF00122, DE E1-E2 ATPase, score 5.4e-104 257310005977 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 4.7e-31 257310005978 PS00154 E1-E2 ATPases phosphorylation site. 257310005979 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 257310005980 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257310005981 Zn2+ binding site [ion binding]; other site 257310005982 Mg2+ binding site [ion binding]; other site 257310005983 HMMPfam hit to PF01966, DE HD domain, score 4.4e-14 257310005984 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 257310005985 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310005986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310005987 homodimer interface [polypeptide binding]; other site 257310005988 catalytic residue [active] 257310005989 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 1.9e-85 257310005990 PS00070 Aldehyde dehydrogenases cysteine active site. 257310005991 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 257310005992 Isochorismatase family; Region: Isochorismatase; pfam00857 257310005993 catalytic triad [active] 257310005994 dimer interface [polypeptide binding]; other site 257310005995 conserved cis-peptide bond; other site 257310005996 HMMPfam hit to PF00857, DE Isochorismatase family, score 2.9e-46 257310005997 Signal peptide predicted for BB1184 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.571 between residues 29 and 30; signal peptide 257310005998 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 257310005999 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310006000 metal binding site [ion binding]; metal-binding site 257310006001 active site 257310006002 I-site; other site 257310006003 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 257310006004 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00563, DE EAL domain, score 2.6e-10 257310006005 PS00445 FGGY family of carbohydrate kinases signature 2. 257310006006 HMMPfam hit to PF00990, DE GGDEF domain, score 1.3e-05 257310006007 Signal peptide predicted for BB1185 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 30 and 31; signal peptide 257310006008 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 257310006009 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006010 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 257310006011 Putative Ig domain; Region: He_PIG; pfam05345 257310006012 VCBS repeat; Region: VCBS_repeat; TIGR01965 257310006013 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 257310006014 Putative Ig domain; Region: He_PIG; pfam05345 257310006015 VCBS repeat; Region: VCBS_repeat; TIGR01965 257310006016 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 257310006017 Putative Ig domain; Region: He_PIG; pfam05345 257310006018 VCBS repeat; Region: VCBS_repeat; TIGR01965 257310006019 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 257310006020 Putative Ig domain; Region: He_PIG; pfam05345 257310006021 VCBS repeat; Region: VCBS_repeat; TIGR01965 257310006022 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 257310006023 Putative Ig domain; Region: He_PIG; pfam05345 257310006024 VCBS repeat; Region: VCBS_repeat; TIGR01965 257310006025 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 257310006026 Putative Ig domain; Region: He_PIG; pfam05345 257310006027 VCBS repeat; Region: VCBS_repeat; TIGR01965 257310006028 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 257310006029 Putative Ig domain; Region: He_PIG; pfam05345 257310006030 VCBS repeat; Region: VCBS_repeat; TIGR01965 257310006031 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 257310006032 Putative Ig domain; Region: He_PIG; pfam05345 257310006033 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 257310006034 metal ion-dependent adhesion site (MIDAS); other site 257310006035 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 257310006036 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.00069 257310006037 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.0046 257310006038 PS00330 Hemolysin-type calcium-binding region signature. 257310006039 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.0018 257310006040 PS00330 Hemolysin-type calcium-binding region signature. 257310006041 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.00043 257310006042 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.049 257310006043 HMMPfam hit to PF00353, DE Hemolysin-type calcium-binding repeat (2 copies), score 0.081 257310006044 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006045 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006046 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 257310006047 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310006048 DNA binding residues [nucleotide binding] 257310006049 dimerization interface [polypeptide binding]; other site 257310006050 HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 1.6e-13 257310006051 PS00622 Bacterial regulatory proteins, luxR family signature. 257310006052 Predicted helix-turn-helix motif with score 1291.000, SD 3.58 at aa 165-186, sequence DSNADIAGELGITERTVKAHLS 257310006053 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 257310006054 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257310006055 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310006056 PS00543 hemolysin Ds signature. 257310006057 HMMPfam hit to PF00529, DE hemolysin D, score 3.3e-15 257310006058 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310006059 1 probable transmembrane helix predicted for BB1188 by TMHMM2.0 at aa 70-92 257310006060 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 257310006061 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 257310006062 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257310006063 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 257310006064 Walker A/P-loop; other site 257310006065 ATP binding site [chemical binding]; other site 257310006066 Q-loop/lid; other site 257310006067 ABC transporter signature motif; other site 257310006068 Walker B; other site 257310006069 D-loop; other site 257310006070 H-loop/switch region; other site 257310006071 HMMPfam hit to PF00005, DE ABC transporter score 4.4e-52 257310006072 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006073 HMMPfam hit to PF00664, DE ABC transporter transmembrane region, score 0.0011 257310006074 5 probable transmembrane helices predicted for BB1189 by TMHMM2.0 at aa 177-199, 214-236, 284-306, 311-330 and 397-419 257310006075 Signal peptide predicted for BB1191 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.974 between residues 23 and 24; signal peptide 257310006076 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 257310006077 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 4.4e-19 257310006078 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 2.2e-24 257310006079 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 257310006080 HMMPfam hit to PF03486, DE HI0933-like protein, score 1.4e-72 257310006081 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310006082 putative DNA binding site [nucleotide binding]; other site 257310006083 HMMPfam hit to PF01022, DE Bacterial regulatory protein, arsR family, score 7.7e-07 257310006084 Predicted helix-turn-helix motif with score 1261.000, SD 3.48 at aa 33-54, sequence VAAGQLAQAMGIAPSSLSFHLK 257310006085 arsenical pump membrane protein; Provisional; Region: PRK15445 257310006086 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 257310006087 transmembrane helices; other site 257310006088 HMMPfam hit to PF02040, DE Arsenical pump membrane protein, score 2.9e-282 257310006089 11 probable transmembrane helices predicted for BB1194 by TMHMM2.0 at aa 21-43, 48-70, 91-110, 114-136, 143-165, 175-197, 224-246, 250-269, 282-301, 311-333 and 401-423 257310006090 Signal peptide predicted for BB1195 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.983 between residues 23 and 24; signal peptide 257310006091 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310006092 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-76 257310006093 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310006094 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310006095 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.1e-53 257310006096 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310006097 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310006098 PS00133 Zinc carboxypeptidases, zinc-binding region 2 signature. 257310006099 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 4.3e-14 257310006100 Predicted helix-turn-helix motif with score 1385.000, SD 3.90 at aa 35-56, sequence ATIDSVADLIGVTKGSVYYYYR 257310006101 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310006102 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310006103 active site 257310006104 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.6e-58 257310006105 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 1.8e-22 257310006106 PS00072 Acyl-CoA dehydrogenases signature 1. 257310006107 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 1.3e-16 257310006108 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 257310006109 classical (c) SDRs; Region: SDR_c; cd05233 257310006110 NAD(P) binding site [chemical binding]; other site 257310006111 active site 257310006112 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 5.6e-70 257310006113 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 257310006114 4 probable transmembrane helices predicted for BB1201 by TMHMM2.0 at aa 4-26, 35-57, 61-83 and 90-109 257310006115 HMMPfam hit to PF00893, DE Integral membrane protein DUF7, score 5.5e-29 257310006116 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310006117 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310006118 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 3.6e-11 257310006119 Predicted helix-turn-helix motif with score 1306.000, SD 3.64 at aa 40-61, sequence TSIQDLVQAMGVNKPSLYATFG 257310006120 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 257310006121 NADP binding site [chemical binding]; other site 257310006122 active site 257310006123 regulatory binding site [polypeptide binding]; other site 257310006124 1 probable transmembrane helix predicted for BB1203 by TMHMM2.0 at aa 7-25 257310006125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310006126 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310006127 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 257310006128 putative effector binding pocket; other site 257310006129 dimerization interface [polypeptide binding]; other site 257310006130 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.6e-18 257310006131 Predicted helix-turn-helix motif with score 1358.000, SD 3.81 at aa 17-38, sequence GSLTQAARRLDRSLQAVSRTLA 257310006132 PS00044 Bacterial regulatory proteins, lysR family signature. 257310006133 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.3e-55 257310006135 HMMPfam hit to PF01468, DE GA module, score 0.56 257310006136 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006137 Signal peptide predicted for BB1206 by SignalP 2.0 HMM (Signal peptide probabilty 0.769) with cleavage site probability 0.293 between residues 30 and 31; signal peptide 257310006138 2 probable transmembrane helices predicted for BB1206 by TMHMM2.0 at aa 13-35 and 50-72 257310006139 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006140 Nucleotidyltransferase domain; Region: NTP_transf_2; pfam01909 257310006141 HMMPfam hit to PF01909, DE Nucleotidyltransferase domain, score 0.013 257310006142 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 257310006143 dimer interface [polypeptide binding]; other site 257310006144 putative CheW interface [polypeptide binding]; other site 257310006145 6 probable transmembrane helices predicted for BB1208 by TMHMM2.0 at aa 20-37, 41-60, 65-84, 88-105, 112-134 and 144-166 257310006146 HMMPfam hit to PF00015, DE Methyl-accepting chemotaxis protein (MCP) signaling domain, score 2.9e-62 257310006147 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310006148 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310006149 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 257310006150 putative effector binding pocket; other site 257310006151 putative dimerization interface [polypeptide binding]; other site 257310006152 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.3e-44 257310006153 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.8e-18 257310006154 PS00044 Bacterial regulatory proteins, lysR family signature. 257310006155 Predicted helix-turn-helix motif with score 1184.000, SD 3.22 at aa 19-40, sequence GSFTRAADSLGVASTTLSGQIQ 257310006156 Signal peptide predicted for BB1210 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.935 between residues 27 and 28; signal peptide 257310006157 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 257310006158 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 257310006159 Uncharacterized conserved protein [Function unknown]; Region: COG2128 257310006160 1 probable transmembrane helix predicted for BB1211 by TMHMM2.0 at aa 13-35 257310006161 Signal peptide predicted for BB1212 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.497 between residues 27 and 28; signal peptide 257310006162 HMMPfam hit to PF02012, DE BNR/Asp-box repeat, score 21 257310006163 HMMPfam hit to PF02012, DE BNR/Asp-box repeat, score 1.8e+02 257310006164 HMMPfam hit to PF02012, DE BNR/Asp-box repeat, score 4.7 257310006165 4 probable transmembrane helices predicted for BB1213 by TMHMM2.0 at aa 21-43, 47-64, 71-89 and 99-118 257310006166 Signal peptide predicted for BB1214 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 24 and 25; signal peptide 257310006167 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310006168 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.4e-98 257310006169 PS00215 Mitochondrial energy transfer proteins signature. 257310006170 hypothetical protein; Provisional; Region: PRK07064 257310006171 Signal peptide predicted for BB1215 by SignalP 2.0 HMM (Signal peptide probabilty 0.855) with cleavage site probability 0.837 between residues 17 and 18; signal peptide 257310006172 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310006173 PYR/PP interface [polypeptide binding]; other site 257310006174 dimer interface [polypeptide binding]; other site 257310006175 TPP binding site [chemical binding]; other site 257310006176 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310006177 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 257310006178 TPP-binding site [chemical binding]; other site 257310006179 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 6.2e-42 257310006180 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 4.9e-07 257310006181 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 2.4e-08 257310006182 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 257310006183 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310006184 NAD(P) binding site [chemical binding]; other site 257310006185 catalytic residues [active] 257310006186 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 1.6e-155 257310006187 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310006188 PS00070 Aldehyde dehydrogenases cysteine active site. 257310006189 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310006190 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310006191 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.4e-66 257310006192 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310006193 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310006194 substrate binding site [chemical binding]; other site 257310006195 oxyanion hole (OAH) forming residues; other site 257310006196 trimer interface [polypeptide binding]; other site 257310006197 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 5.1e-39 257310006198 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310006199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310006200 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 257310006201 putative dimerization interface [polypeptide binding]; other site 257310006202 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7.1e-37 257310006203 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.6e-20 257310006204 PS00044 Bacterial regulatory proteins, lysR family signature. 257310006205 Predicted helix-turn-helix motif with score 984.000, SD 2.54 at aa 18-39, sequence RSLSGGANAVHLTTSAASYRLK 257310006206 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310006207 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310006208 metal binding site [ion binding]; metal-binding site 257310006209 active site 257310006210 I-site; other site 257310006211 2 probable transmembrane helices predicted for BB1220 by TMHMM2.0 at aa 50-72 and 357-376 257310006212 HMMPfam hit to PF00990, DE GGDEF domain, score 4.5e-42 257310006213 Signal peptide predicted for BB1221 by SignalP 2.0 HMM (Signal peptide probabilty 0.911) with cleavage site probability 0.867 between residues 15 and 16; signal peptide 257310006214 Signal peptide predicted for BB1222 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.537 between residues 21 and 22; signal peptide 257310006215 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310006216 Coenzyme A binding pocket [chemical binding]; other site 257310006217 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 2.4e-13 257310006218 aminoglycoside resistance protein; Provisional; Region: PRK13746 257310006219 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 257310006220 active site 257310006221 NTP binding site [chemical binding]; other site 257310006222 metal binding triad [ion binding]; metal-binding site 257310006223 antibiotic binding site [chemical binding]; other site 257310006224 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 257310006225 HMMPfam hit to PF01909, DE Nucleotidyltransferase domain, score 1.5e-13 257310006226 putative amidase; Provisional; Region: PRK06169 257310006227 Amidase; Region: Amidase; cl11426 257310006228 HMMPfam hit to PF01425, DE Amidase, score 2.4e-77 257310006229 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006230 Signal peptide predicted for BB1226 by SignalP 2.0 HMM (Signal peptide probabilty 0.982) with cleavage site probability 0.271 between residues 35 and 36; signal peptide 257310006231 DctM-like transporters; Region: DctM; pfam06808 257310006232 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310006233 12 probable transmembrane helices predicted for BB1226 by TMHMM2.0 at aa 5-27, 48-70, 97-119, 140-162, 172-194, 215-237, 241-258, 271-293, 308-330, 335-354, 359-381 and 393-415 257310006234 HMMPfam hit to PF00597, DE DedA family, score 1.4e-18 257310006235 Signal peptide predicted for BB1227 by SignalP 2.0 HMM (Signal peptide probabilty 0.947) with cleavage site probability 0.389 between residues 37 and 38; signal peptide 257310006236 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 257310006237 4 probable transmembrane helices predicted for BB1227 by TMHMM2.0 at aa 19-41, 61-83, 96-118 and 133-155 257310006238 Signal peptide predicted for BB1228 by SignalP 2.0 HMM (Signal peptide probabilty 0.989) with cleavage site probability 0.624 between residues 20 and 21; signal peptide 257310006239 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310006240 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 257310006241 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 2.4e-92 257310006242 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006243 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 257310006244 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 257310006245 putative catalytic residue [active] 257310006246 HMMPfam hit to PF03046, DE 2-hydroxychromene-2-carboxylate isomerase family, score 8.4e-28 257310006247 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 257310006248 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006249 Hemerythrin-like domain; Region: Hr-like; cd12108 257310006250 Fe binding site [ion binding]; other site 257310006251 HMMPfam hit to PF03794, DE Domain of Unknown function, score 2.2e-06 257310006252 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; cl17606 257310006253 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 257310006254 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 257310006255 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310006256 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 257310006257 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 257310006258 DNA binding site [nucleotide binding] 257310006259 active site 257310006260 HMMPfam hit to PF01035, DE 6-O-methylguanine DNA methyltransferase, DNA binding domain, score 3.7e-38 257310006261 PS00374 Methylated-DNA--protein-cysteine methyltransferase active site. 257310006262 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.31 257310006263 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 1.1e-09 257310006264 Predicted helix-turn-helix motif with score 1618.000, SD 4.70 at aa 106-127, sequence PTLEALAAHVGLSPFHLHRLFK 257310006265 HMMPfam hit to PF02805, DE Metal binding domain of Ada, score 7.1e-21 257310006266 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 257310006267 endonuclease III; Region: ENDO3c; smart00478 257310006268 minor groove reading motif; other site 257310006269 helix-hairpin-helix signature motif; other site 257310006270 substrate binding pocket [chemical binding]; other site 257310006271 active site 257310006272 HMMPfam hit to PF00730, DE HhH-GPD superfamily base excision DNA repair protein, score 0.0091 257310006273 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 257310006274 putative dimer interface [polypeptide binding]; other site 257310006275 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310006276 HMMPfam hit to PF00903, DE Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily, score 0.00036 257310006277 Signal peptide predicted for BB1237 by SignalP 2.0 HMM (Signal peptide probabilty 0.921) with cleavage site probability 0.471 between residues 19 and 20; signal peptide 257310006278 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 257310006279 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 257310006280 putative active site [active] 257310006281 putative metal binding site [ion binding]; other site 257310006282 PS00215 Mitochondrial energy transfer proteins signature. 257310006283 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 3e-16 257310006284 4 probable transmembrane helices predicted for BB1237 by TMHMM2.0 at aa 7-25, 35-57, 70-92 and 112-134 257310006285 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310006286 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 257310006287 HMMPfam hit to PF01654, DE Bacterial Cytochrome Ubiquinol Oxidase, score 6.7e-215 257310006288 9 probable transmembrane helices predicted for BB1238 by TMHMM2.0 at aa 15-37, 56-78, 98-120, 127-149, 186-208, 215-237, 323-345, 357-379 and 408-430 257310006289 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 257310006290 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 257310006291 HMMPfam hit to PF02322, DE Cytochrome oxidase subunit II, score 2.8e-144 257310006292 8 probable transmembrane helices predicted for BB1239 by TMHMM2.0 at aa 5-22, 77-99, 119-141, 151-173, 194-216, 231-248, 260-282 and 302-324 257310006293 PS00079 Multicopper oxidases signature 1. 257310006294 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006295 1 probable transmembrane helix predicted for BB1240 by TMHMM2.0 at aa 15-37 257310006296 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 257310006297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310006298 DNA-binding site [nucleotide binding]; DNA binding site 257310006299 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310006300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310006301 homodimer interface [polypeptide binding]; other site 257310006302 catalytic residue [active] 257310006303 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.4e-10 257310006304 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 3.4e-10 257310006305 tetrathionate reductase subunit A; Provisional; Region: PRK14991 257310006306 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 257310006307 molybdopterin cofactor binding site; other site 257310006308 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 257310006309 putative molybdopterin cofactor binding site [chemical binding]; other site 257310006310 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 257310006311 putative molybdopterin cofactor binding site; other site 257310006312 HMMPfam hit to PF01568, DE Molydopterin dinucleotide binding domain, score 1.1e-07 257310006313 HMMPfam hit to PF00384, DE Molybdopterin oxidoreductase, score 2.8e-06 257310006314 1 probable transmembrane helix predicted for BB1243 by TMHMM2.0 at aa 21-43 257310006315 tetrathionate reductase subunit C; Provisional; Region: PRK14992 257310006316 9 probable transmembrane helices predicted for BB1244 by TMHMM2.0 at aa 20-42, 49-71, 95-117, 124-146, 156-178, 191-213, 233-254, 261-283 and 310-332 257310006317 HMMPfam hit to PF03916, DE Polysulphide reductase, NrfD, score 2.8e-06 257310006318 tetrathionate reductase subunit B; Provisional; Region: PRK14993 257310006319 4Fe-4S binding domain; Region: Fer4; pfam00037 257310006320 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 6.4e-08 257310006321 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310006322 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.032 257310006323 Signal peptide predicted for BB1246 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 23 and 24; signal peptide 257310006324 EF-hand domain pair; Region: EF_hand_5; pfam13499 257310006325 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 257310006326 Ca2+ binding site [ion binding]; other site 257310006327 1 probable transmembrane helix predicted for BB1246 by TMHMM2.0 at aa 5-27 257310006328 HMMPfam hit to PF00036, DE EF hand, score 2.9 257310006329 PS00018 EF-hand calcium-binding domain. 257310006330 HMMPfam hit to PF00036, DE EF hand, score 0.88 257310006331 PS00018 EF-hand calcium-binding domain. 257310006332 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 257310006333 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 3.1e-21 257310006334 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 257310006335 Found in ATP-dependent protease La (LON); Region: LON; smart00464 257310006336 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310006337 Walker A motif; other site 257310006338 ATP binding site [chemical binding]; other site 257310006339 Walker B motif; other site 257310006340 arginine finger; other site 257310006341 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 257310006342 PS01046 ATP-dependent serine proteases, lon family, serine active site. 257310006343 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 1.5e-45 257310006344 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006345 HMMPfam hit to PF02190, DE ATP-dependent protease La (LON) domain, score 4.1e-09 257310006346 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 257310006347 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 257310006348 putative dimer interface [polypeptide binding]; other site 257310006349 Signal peptide predicted for BB1250 by SignalP 2.0 HMM (Signal peptide probabilty 0.989) with cleavage site probability 0.643 between residues 53 and 54; signal peptide 257310006350 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 257310006351 7 probable transmembrane helices predicted for BB1250 by TMHMM2.0 at aa 7-28, 43-65, 78-100, 104-126, 139-161, 200-222 and 234-251 257310006352 Signal peptide predicted for BB1251 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.756 between residues 22 and 23; signal peptide 257310006353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310006354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310006355 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 257310006356 putative dimerization interface [polypeptide binding]; other site 257310006357 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.9e-10 257310006358 PS00044 Bacterial regulatory proteins, lysR family signature. 257310006359 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03466, DE LysR substrate binding domain, score 8.4e-46 257310006360 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 257310006361 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 257310006362 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 257310006363 active site 257310006364 purine riboside binding site [chemical binding]; other site 257310006365 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00962, DE Adenosine/AMP deaminase, score 1.7e-68 257310006366 Signal peptide predicted for BB1255 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.922 between residues 24 and 25; signal peptide 257310006367 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310006368 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-68 257310006369 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 257310006370 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006371 HMMPfam hit to PF03737, DE Dimethylmenaquinone methyltransferase, score 7.9e-29 257310006372 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 257310006373 HMMPfam hit to PF02585, DE Uncharacterized LmbE-like protein, COG2120, score 5.7e-06 257310006374 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310006375 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310006376 Predicted helix-turn-helix motif with score 1347.000, SD 3.77 at aa 26-47, sequence LGLAEFAARLPLHKTTIFRLLN 257310006377 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 257310006378 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 257310006379 FMN binding site [chemical binding]; other site 257310006380 substrate binding site [chemical binding]; other site 257310006381 putative catalytic residue [active] 257310006382 HMMPfam hit to PF03060, DE 2-nitropropane dioxygenase, score 5.5e-75 257310006383 PS00912 Dihydroorotate dehydrogenase signature 2. 257310006384 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 257310006385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310006386 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310006387 dimerization interface [polypeptide binding]; other site 257310006388 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7.3e-25 257310006389 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 6.2e-20 257310006390 PS00044 Bacterial regulatory proteins, lysR family signature. 257310006391 Signal peptide predicted for BB1261 by SignalP 2.0 HMM (Signal peptide probabilty 0.883) with cleavage site probability 0.687 between residues 44 and 45; signal peptide 257310006392 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310006393 EamA-like transporter family; Region: EamA; pfam00892 257310006394 10 probable transmembrane helices predicted for BB1261 by TMHMM2.0 at aa 21-43, 48-70, 83-105, 110-132, 141-159, 164-186, 193-215, 230-252, 259-278 and 282-304 257310006395 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 2.7e-16 257310006396 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 2.1e-17 257310006397 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 257310006398 Helix-turn-helix domain; Region: HTH_18; pfam12833 257310006399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310006400 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 2.7e-09 257310006401 PS00041 Bacterial regulatory proteins, araC family signature. 257310006402 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.00016 257310006403 Predicted helix-turn-helix motif with score 1759.000, SD 5.18 at aa 182-203, sequence LTLADLAQACGLSRYQVLRGFA 257310006404 Signal peptide predicted for BB1263 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.470 between residues 31 and 32; signal peptide 257310006405 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 257310006406 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 257310006407 active site 257310006408 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 257310006409 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 257310006411 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 257310006412 HMMPfam hit to PF03976, DE Domain of unknown function (DUF344), score 6.5e-155 257310006413 SlyX; Region: SlyX; pfam04102 257310006414 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 257310006415 HMMPfam hit to PF02639, DE Uncharacterized BCR, YaiI/YqxD family COG1671, score 5e-56 257310006416 threonine dehydratase; Reviewed; Region: PRK09224 257310006417 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 257310006418 tetramer interface [polypeptide binding]; other site 257310006419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310006420 catalytic residue [active] 257310006421 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 257310006422 putative Ile/Val binding site [chemical binding]; other site 257310006423 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 257310006424 putative Ile/Val binding site [chemical binding]; other site 257310006425 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 1e-101 257310006426 PS00165 Serine/threonine dehydratases pyridoxal-phosphate attachment site. 257310006427 HMMPfam hit to PF00585, DE C-terminal regulatory domain of Threonine dehydratase, score 2.7e-34 257310006428 HMMPfam hit to PF00585, DE C-terminal regulatory domain of Threonine dehydratase, score 1.9e-26 257310006429 3 probable transmembrane helices predicted for BB1269 by TMHMM2.0 at aa 4-26, 39-61 and 76-98 257310006430 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310006431 putative DNA binding site [nucleotide binding]; other site 257310006432 putative Zn2+ binding site [ion binding]; other site 257310006433 HMMPfam hit to PF01022, DE Bacterial regulatory protein, arsR family, score 0.0017 257310006434 Predicted helix-turn-helix motif with score 1133.000, SD 3.05 at aa 11-32, sequence RTATELAALADIGASSASAHFA 257310006435 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310006436 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 257310006437 active site 257310006438 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 6.2e-07 257310006439 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 2.1e-06 257310006440 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.7e-58 257310006441 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310006442 active site 2 [active] 257310006443 active site 1 [active] 257310006444 Signal peptide predicted for BB1273 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.443 between residues 26 and 27; signal peptide 257310006445 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310006446 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.5e-101 257310006447 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 257310006448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310006449 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 257310006450 dimerization interface [polypeptide binding]; other site 257310006451 substrate binding pocket [chemical binding]; other site 257310006452 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.1e-34 257310006453 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.2e-25 257310006454 PS00044 Bacterial regulatory proteins, lysR family signature. 257310006455 Predicted helix-turn-helix motif with score 1177.000, SD 3.20 at aa 16-37, sequence LNFHRAAERLHMAQPPLSTAIR 257310006456 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310006457 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310006458 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.7e-64 257310006459 Signal peptide predicted for BB1276 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.944 between residues 17 and 18; signal peptide 257310006460 11 probable transmembrane helices predicted for BB1276 by TMHMM2.0 at aa 61-83, 96-118, 123-145, 150-172, 182-204, 224-246, 261-283, 290-312, 316-338, 359-378 and 382-399 257310006461 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310006462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310006463 LysR substrate binding domain; Region: LysR_substrate; pfam03466 257310006464 dimerization interface [polypeptide binding]; other site 257310006465 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.8e-15 257310006466 Predicted helix-turn-helix motif with score 1006.000, SD 2.61 at aa 11-32, sequence GSFRAGAARLHRVQSAVSHAIA 257310006467 PS00044 Bacterial regulatory proteins, lysR family signature. 257310006468 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6e-24 257310006469 HutD; Region: HutD; pfam05962 257310006470 Pirin-related protein [General function prediction only]; Region: COG1741 257310006471 Pirin; Region: Pirin; pfam02678 257310006472 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 257310006473 HMMPfam hit to PF02678, DE Uncharacterized BCR, YhhW family COG1741, score 4.2e-08 257310006474 Methyltransferase domain; Region: Methyltransf_31; pfam13847 257310006475 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310006476 Signal peptide predicted for BB1281 by SignalP 2.0 HMM (Signal peptide probabilty 0.650) with cleavage site probability 0.291 between residues 22 and 23; signal peptide 257310006477 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257310006478 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310006479 ATP binding site [chemical binding]; other site 257310006480 G-X-G motif; other site 257310006481 6 probable transmembrane helices predicted for BB1281 by TMHMM2.0 at aa 13-35, 39-61, 68-90, 94-113, 118-135 and 145-167 257310006482 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 0.0063 257310006483 PS00213 Lipocalin signature. 257310006484 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 7.5e-16 257310006485 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 257310006486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310006487 active site 257310006488 phosphorylation site [posttranslational modification] 257310006489 intermolecular recognition site; other site 257310006490 dimerization interface [polypeptide binding]; other site 257310006491 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 257310006492 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.2e-17 257310006493 HMMPfam hit to PF02954, DE Bacterial regulatory protein, Fis family, score 1.4e-11 257310006494 Predicted helix-turn-helix motif with score 1302.000, SD 3.62 at aa 151-172, sequence GNVSAAARLLGMHRRSLQRKLA 257310006495 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 257310006496 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 257310006497 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 257310006498 3 probable transmembrane helices predicted for BB1283 by TMHMM2.0 at aa 7-29, 44-66 and 87-109 257310006499 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006500 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 257310006501 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 257310006502 D-pathway; other site 257310006503 Putative ubiquinol binding site [chemical binding]; other site 257310006504 Low-spin heme (heme b) binding site [chemical binding]; other site 257310006505 Putative water exit pathway; other site 257310006506 Binuclear center (heme o3/CuB) [ion binding]; other site 257310006507 K-pathway; other site 257310006508 Putative proton exit pathway; other site 257310006509 15 probable transmembrane helices predicted for BB1284 by TMHMM2.0 at aa 15-37, 58-80, 106-128, 141-163, 190-212, 233-255, 277-299, 311-333, 348-370, 383-405, 420-442, 455-477, 492-514, 590-607 and 611-628 257310006510 HMMPfam hit to PF00115, DE Cytochrome C and Quinol oxidase polypeptide I, score 6e-258 257310006511 PS00077 Heme-copper oxidase catalytic subunit, copper B binding region signature. 257310006512 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 257310006513 Subunit I/III interface [polypeptide binding]; other site 257310006514 Subunit III/IV interface [polypeptide binding]; other site 257310006515 HMMPfam hit to PF00510, DE Cytochrome c oxidase subunit III, score 0.0014 257310006516 5 probable transmembrane helices predicted for BB1285 by TMHMM2.0 at aa 27-49, 69-91, 98-117, 137-159 and 180-202 257310006517 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 257310006518 HMMPfam hit to PF03626, DE Prokaryotic Cytochrome C oxidase subunit IV, score 4.5e-30 257310006519 3 probable transmembrane helices predicted for BB1286 by TMHMM2.0 at aa 21-43, 47-69 and 81-103 257310006520 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310006521 dimerization interface [polypeptide binding]; other site 257310006522 putative DNA binding site [nucleotide binding]; other site 257310006523 HMMPfam hit to PF01022, DE Bacterial regulatory protein, arsR family, score 0.006 257310006524 Signal peptide predicted for BB1288 by SignalP 2.0 HMM (Signal peptide probabilty 0.838) with cleavage site probability 0.683 between residues 23 and 24; signal peptide 257310006525 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310006526 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310006527 putative substrate translocation pore; other site 257310006528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310006529 14 probable transmembrane helices predicted for BB1288 by TMHMM2.0 at aa 13-35, 50-69, 82-101, 106-128, 141-163, 168-190, 203-225, 230-252, 265-287, 302-324, 337-359, 364-386, 407-426 and 441-463 257310006530 Predicted membrane protein [Function unknown]; Region: COG2259 257310006531 2 probable transmembrane helices predicted for BB1289 by TMHMM2.0 at aa 98-120 and 135-157 257310006532 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 257310006533 hypothetical protein; Provisional; Region: PRK05409 257310006534 Signal peptide predicted for BB1292 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.987 between residues 39 and 40; signal peptide 257310006535 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 257310006536 Signal peptide predicted for BB1293 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.470 between residues 34 and 35; signal peptide 257310006537 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 257310006538 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006539 Signal peptide predicted for BB1294 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.981 between residues 24 and 25; signal peptide 257310006540 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 257310006541 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310006542 N-terminal plug; other site 257310006543 ligand-binding site [chemical binding]; other site 257310006544 PS00430 TonB-dependent receptor proteins signature 1. 257310006545 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 1.7e-17 257310006546 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006547 Signal peptide predicted for BB1295 by SignalP 2.0 HMM (Signal peptide probabilty 0.906) with cleavage site probability 0.734 between residues 38 and 39; signal peptide 257310006548 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 257310006549 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 257310006550 4 probable transmembrane helices predicted for BB1295 by TMHMM2.0 at aa 20-42, 214-236, 257-279 and 458-480 257310006551 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 257310006552 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02417, DE Chromate transporter score 0.0016 257310006553 10 probable transmembrane helices predicted for BB1296 by TMHMM2.0 at aa 57-79, 124-146, 156-178, 191-213, 218-240, 245-264, 279-301, 308-330, 345-367 and 379-401 257310006554 HMMPfam hit to PF02417, DE Chromate transporter score 1.4e-21 257310006555 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006556 PS00626 Regulator of chromosome condensation (RCC1) signature 2. 257310006557 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 257310006558 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 257310006559 Peptidase family M23; Region: Peptidase_M23; pfam01551 257310006560 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006561 HMMPfam hit to PF01476, DE LysM domain, score 1.5e-11 257310006562 PS00012 Phosphopantetheine attachment site. 257310006563 HMMPfam hit to PF01551, DE Peptidase family M23/M37, score 4.9e-33 257310006564 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 257310006565 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310006566 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006567 Signal peptide predicted for BB1299 by SignalP 2.0 HMM (Signal peptide probabilty 0.984) with cleavage site probability 0.860 between residues 33 and 34; signal peptide 257310006568 4 probable transmembrane helices predicted for BB1299 by TMHMM2.0 at aa 10-32, 53-75, 85-107 and 127-149 257310006569 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 257310006570 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 257310006571 Signal peptide predicted for BB1301 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.994 between residues 22 and 23; signal peptide 257310006572 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 257310006573 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 257310006574 HMMPfam hit to PF03640, DE Secreted repeat of unknown function, score 2.1e-11 257310006575 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03640, DE Secreted repeat of unknown function, score 5.8e-12 257310006576 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 257310006577 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310006578 HMMPfam hit to PF00776, , score 5.6e-08 257310006579 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 257310006580 N-formylglutamate amidohydrolase; Region: FGase; cl01522 257310006581 Signal peptide predicted for BB1305 by SignalP 2.0 HMM (Signal peptide probabilty 0.973) with cleavage site probability 0.754 between residues 25 and 26; signal peptide 257310006582 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 257310006583 putative NAD(P) binding site [chemical binding]; other site 257310006584 putative active site [active] 257310006585 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.8e-42 257310006586 Signal peptide predicted for BB1306 by SignalP 2.0 HMM (Signal peptide probabilty 0.698) with cleavage site probability 0.526 between residues 41 and 42; signal peptide 257310006587 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 257310006588 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02104, DE SURF1 family, score 1.9e-06 257310006589 2 probable transmembrane helices predicted for BB1306 by TMHMM2.0 at aa 27-49 and 234-256 257310006590 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 257310006591 3 probable transmembrane helices predicted for BB1307 by TMHMM2.0 at aa 31-53, 63-82 and 95-117 257310006592 HMMPfam hit to PF03626, DE Prokaryotic Cytochrome C oxidase subunit IV, score 1.5e-42 257310006593 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 257310006594 Subunit I/III interface [polypeptide binding]; other site 257310006595 Subunit III/IV interface [polypeptide binding]; other site 257310006596 HMMPfam hit to PF00510, DE Cytochrome c oxidase subunit III, score 9e-06 257310006597 5 probable transmembrane helices predicted for BB1308 by TMHMM2.0 at aa 36-58, 73-95, 108-130, 145-167 and 188-210 257310006598 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 257310006599 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 257310006600 D-pathway; other site 257310006601 Putative ubiquinol binding site [chemical binding]; other site 257310006602 Low-spin heme (heme b) binding site [chemical binding]; other site 257310006603 Putative water exit pathway; other site 257310006604 Binuclear center (heme o3/CuB) [ion binding]; other site 257310006605 K-pathway; other site 257310006606 Putative proton exit pathway; other site 257310006607 15 probable transmembrane helices predicted for BB1309 by TMHMM2.0 at aa 31-53, 73-95, 121-143, 156-178, 207-229, 249-271, 297-319, 326-348, 363-385, 398-420, 430-452, 473-495, 510-532, 594-616 and 620-642 257310006608 HMMPfam hit to PF00115, DE Cytochrome C and Quinol oxidase polypeptide I, score 6.3e-246 257310006609 PS00077 Heme-copper oxidase catalytic subunit, copper B binding region signature. 257310006610 Signal peptide predicted for BB1310 by SignalP 2.0 HMM (Signal peptide probabilty 0.908) with cleavage site probability 0.462 between residues 27 and 28; signal peptide 257310006611 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 257310006612 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 257310006613 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 257310006614 3 probable transmembrane helices predicted for BB1310 by TMHMM2.0 at aa 7-27, 42-64 and 84-106 257310006615 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006616 metabolite-proton symporter; Region: 2A0106; TIGR00883 257310006617 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 3.9e-07 257310006618 12 probable transmembrane helices predicted for BB1311 by TMHMM2.0 at aa 48-67, 72-94, 107-124, 129-151, 171-193, 208-230, 264-286, 296-318, 325-347, 357-379, 386-408 and 413-435 257310006619 PS00216 Sugar transport proteins signature 1. 257310006620 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 257310006621 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 257310006622 tetramer interface [polypeptide binding]; other site 257310006623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310006624 catalytic residue [active] 257310006625 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 1e-58 257310006626 threonine and homoserine efflux system; Provisional; Region: PRK10532 257310006627 EamA-like transporter family; Region: EamA; pfam00892 257310006628 9 probable transmembrane helices predicted for BB1314 by TMHMM2.0 at aa 13-35, 48-70, 74-96, 103-122, 127-146, 159-181, 186-205, 218-237 and 241-263 257310006629 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 1.2e-17 257310006630 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 257310006631 Ligand Binding Site [chemical binding]; other site 257310006632 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00582, DE Universal stress protein family, score 6.3e-05 257310006633 Chromate transporter; Region: Chromate_transp; pfam02417 257310006634 HMMPfam hit to PF02417, DE Chromate transporter score 5.9e-21 257310006635 4 probable transmembrane helices predicted for BB1316 by TMHMM2.0 at aa 20-42, 89-111, 121-143 and 150-171 257310006636 Signal peptide predicted for BB1317 by SignalP 2.0 HMM (Signal peptide probabilty 0.943) with cleavage site probability 0.835 between residues 21 and 22; signal peptide 257310006637 Chromate transporter; Region: Chromate_transp; pfam02417 257310006638 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02417, DE Chromate transporter score 2.5e-09 257310006639 5 probable transmembrane helices predicted for BB1317 by TMHMM2.0 at aa 5-27, 47-69, 76-98, 108-130 and 137-159 257310006640 PS01036 Heat shock hsp70 proteins family signature 3. 257310006641 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 257310006642 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310006643 S-adenosylmethionine binding site [chemical binding]; other site 257310006644 PS00092 N-6 Adenine-specific DNA methylases signature. 257310006645 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 257310006646 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 257310006647 HMMPfam hit to PF02634, DE FdhD/NarQ family, score 8.6e-78 257310006648 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 257310006649 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310006650 catalytic loop [active] 257310006651 iron binding site [ion binding]; other site 257310006652 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 257310006653 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 257310006654 [4Fe-4S] binding site [ion binding]; other site 257310006655 molybdopterin cofactor binding site; other site 257310006656 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 257310006657 molybdopterin cofactor binding site; other site 257310006658 HMMPfam hit to PF01568, DE Molydopterin dinucleotide binding domain, score 1.9e-28 257310006659 HMMPfam hit to PF00384, DE Molybdopterin oxidoreductase, score 1.4e-132 257310006660 PS00551 Prokaryotic molybdopterin oxidoreductases signature 1. 257310006661 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.00036 257310006662 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310006663 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.043 257310006664 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310006665 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 1.9e-10 257310006666 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 257310006667 putative dimer interface [polypeptide binding]; other site 257310006668 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 257310006669 SLBB domain; Region: SLBB; pfam10531 257310006670 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 257310006671 PS00645 Respiratory-chain NADH dehydrogenase 51 Kd subunit signature 2. 257310006672 HMMPfam hit to PF01512, DE Respiratory-chain NADH dehydrogenase 51 Kd subunit, score 7.2e-118 257310006673 PS00644 Respiratory-chain NADH dehydrogenase 51 Kd subunit signature 1. 257310006674 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 257310006675 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 257310006676 putative dimer interface [polypeptide binding]; other site 257310006677 [2Fe-2S] cluster binding site [ion binding]; other site 257310006678 HMMPfam hit to PF01257, DE Respiratory-chain NADH dehydrogenase 24 Kd subunit, score 1.1e-25 257310006679 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 257310006680 PBP superfamily domain; Region: PBP_like; pfam12727 257310006681 HMMPfam hit to PF02573, DE N-terminal HTH domain of molybdenum-binding protein, score 8.4e-06 257310006682 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 257310006683 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 257310006684 FeS/SAM binding site; other site 257310006685 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 257310006686 PS01305 moaA / nifB / pqqE family signature. 257310006687 HMMPfam hit to PF01444, , score 4.9e-60 257310006688 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 257310006689 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 257310006690 dimer interface [polypeptide binding]; other site 257310006691 putative functional site; other site 257310006692 putative MPT binding site; other site 257310006693 HMMPfam hit to PF03454, DE MoeA C-terminal region (domain IV), score 5.3e-09 257310006694 HMMPfam hit to PF00994, DE Probable molybdopterin binding domain, score 1.5e-56 257310006695 PS01079 Molybdenum cofactor biosynthesis proteins signature 2. 257310006696 HMMPfam hit to PF03453, DE MoeA N-terminal region (domain I and II), score 4e-50 257310006697 Signal peptide predicted for BB1327 by SignalP 2.0 HMM (Signal peptide probabilty 0.699) with cleavage site probability 0.357 between residues 22 and 23; signal peptide 257310006698 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 257310006699 MPT binding site; other site 257310006700 trimer interface [polypeptide binding]; other site 257310006701 HMMPfam hit to PF00994, DE Probable molybdopterin binding domain, score 1.1e-42 257310006702 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 257310006703 MoaE homodimer interface [polypeptide binding]; other site 257310006704 MoaD interaction [polypeptide binding]; other site 257310006705 active site residues [active] 257310006706 HMMPfam hit to PF02391, DE MoaE protein, score 3.6e-32 257310006707 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 257310006708 MoaE interaction surface [polypeptide binding]; other site 257310006709 MoeB interaction surface [polypeptide binding]; other site 257310006710 thiocarboxylated glycine; other site 257310006711 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02597, DE ThiS family, score 1.1e-07 257310006712 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 257310006713 trimer interface [polypeptide binding]; other site 257310006714 dimer interface [polypeptide binding]; other site 257310006715 putative active site [active] 257310006716 HMMPfam hit to PF01967, DE MoaC family, score 2.1e-74 257310006717 Signal peptide predicted for BB1331 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.525 between residues 32 and 33; signal peptide 257310006718 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 257310006719 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 257310006720 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 257310006721 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 257310006722 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 257310006723 ligand binding site [chemical binding]; other site 257310006724 Signal peptide predicted for BB1332 by SignalP 2.0 HMM (Signal peptide probabilty 0.936) with cleavage site probability 0.596 between residues 47 and 48; signal peptide 257310006725 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 257310006726 HMMPfam hit to PF01738, DE Dienelactone hydrolase family, score 2.2e-70 257310006727 Signal peptide predicted for BB1333 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.431 between residues 20 and 21; signal peptide 257310006728 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006729 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 257310006730 catalytic triad [active] 257310006731 dimer interface [polypeptide binding]; other site 257310006732 HMMPfam hit to PF00578, DE AhpC/TSA family, score 1.7e-06 257310006733 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310006734 putative MFS family transporter protein; Provisional; Region: PRK03633 257310006735 putative substrate translocation pore; other site 257310006736 12 probable transmembrane helices predicted for BB1335 by TMHMM2.0 at aa 21-43, 63-83, 90-109, 119-141, 154-176, 181-203, 224-246, 256-278, 285-307, 311-333, 345-367 and 371-393 257310006737 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0019 257310006738 Signal peptide predicted for BB1336 by SignalP 2.0 HMM (Signal peptide probabilty 0.931) with cleavage site probability 0.709 between residues 19 and 20; signal peptide 257310006739 10 probable transmembrane helices predicted for BB1336 by TMHMM2.0 at aa 5-22, 35-52, 67-86, 99-118, 122-136, 156-173, 183-205, 212-234, 244-266 and 273-290 257310006740 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006741 biotin synthase; Region: bioB; TIGR00433 257310006742 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 257310006743 FeS/SAM binding site; other site 257310006744 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 257310006745 HMMPfam hit to PF01792, , score 3.9e-184 257310006746 Signal peptide predicted for BB1338 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 20 and 21; signal peptide 257310006747 Signal peptide predicted for BB1339 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 20 and 21; signal peptide 257310006748 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310006749 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310006750 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 3.5e-05 257310006751 Predicted helix-turn-helix motif with score 1755.000, SD 5.16 at aa 29-50, sequence FSYRDLADHVGVKTSSVHYYFP 257310006752 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 257310006753 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 257310006754 tetramer interface [polypeptide binding]; other site 257310006755 active site 257310006756 Mg2+/Mn2+ binding site [ion binding]; other site 257310006757 PS00161 Isocitrate lyase signature. 257310006758 aconitate hydratase; Validated; Region: PRK09277 257310006759 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 257310006760 substrate binding site [chemical binding]; other site 257310006761 ligand binding site [chemical binding]; other site 257310006762 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 257310006763 substrate binding site [chemical binding]; other site 257310006764 HMMPfam hit to PF00330, DE Aconitase family (aconitate hydratase), score 1.4e-169 257310006765 PS00450 Aconitase family signature 1. 257310006766 HMMPfam hit to PF00694, DE Aconitase C-terminal domain, score 4.1e-54 257310006767 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 257310006768 phenylhydantoinase; Validated; Region: PRK08323 257310006769 Cyclic amidohydrolases, including hydantoinase, dihydropyrimidinase, allantoinase, and dihydroorotase, are involved in the metabolism of pyrimidines and purines, sharing the property of hydrolyzing the cyclic amide bond of each substrate to the...; Region: Cyclic_amidohydrolases; cd01302 257310006770 active site 257310006771 tetramer interface [polypeptide binding]; other site 257310006772 HMMPfam hit to PF00744, DE Dihydroorotase-like, score 1.4e-46 257310006773 Isochorismatase family; Region: Isochorismatase; pfam00857 257310006774 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 257310006775 catalytic triad [active] 257310006776 conserved cis-peptide bond; other site 257310006777 HMMPfam hit to PF00857, DE Isochorismatase family, score 3e-06 257310006778 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 257310006779 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 257310006780 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 257310006781 HMMPfam hit to PF02492, DE Cobalamin synthesis protein/P47K, score 2.8e-44 257310006782 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006783 Signal peptide predicted for BB1346 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.866 between residues 39 and 40; signal peptide 257310006784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310006785 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.6e-64 257310006786 L-aspartate oxidase; Provisional; Region: PRK06175 257310006787 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 257310006788 Signal peptide predicted for BB1348 by SignalP 2.0 HMM (Signal peptide probabilty 0.628) with cleavage site probability 0.603 between residues 20 and 21; signal peptide 257310006789 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 257310006790 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 1e-60 257310006791 Signal peptide predicted for BB1349 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.979 between residues 30 and 31; signal peptide 257310006792 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310006793 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7.2e-123 257310006794 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 257310006795 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 5.4e-26 257310006796 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310006797 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310006798 DNA-binding site [nucleotide binding]; DNA binding site 257310006799 FCD domain; Region: FCD; pfam07729 257310006800 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 0.00065 257310006801 PS00043 Bacterial regulatory proteins, gntR family signature. 257310006802 Predicted helix-turn-helix motif with score 1275.000, SD 3.53 at aa 41-62, sequence INEVELAREFGVSRGPVREAVR 257310006803 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 257310006804 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257310006805 active site 257310006806 catalytic tetrad [active] 257310006807 HMMPfam hit to PF00248, DE Aldo/keto reductase family, score 8.5e-49 257310006808 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 257310006809 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 257310006810 putative active site [active] 257310006811 catalytic triad [active] 257310006812 putative dimer interface [polypeptide binding]; other site 257310006813 5 probable transmembrane helices predicted for BB1353 by TMHMM2.0 at aa 21-43, 48-70, 103-125, 140-162 and 175-197 257310006814 FOG: CBS domain [General function prediction only]; Region: COG0517 257310006815 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 257310006816 Transporter associated domain; Region: CorC_HlyC; smart01091 257310006817 HMMPfam hit to PF03471, DE Transporter associated domain, score 2.3e-19 257310006818 HMMPfam hit to PF00571, DE CBS domain, score 2.2e-05 257310006819 HMMPfam hit to PF00571, DE CBS domain, score 4.3e-08 257310006820 metal-binding heat shock protein; Provisional; Region: PRK00016 257310006821 HMMPfam hit to PF02130, DE Uncharacterized protein family UPF0054, score 5.2e-28 257310006822 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 257310006823 PhoH-like protein; Region: PhoH; pfam02562 257310006824 HMMPfam hit to PF02562, DE PhoH-like protein, score 7.7e-150 257310006825 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006826 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 257310006827 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 257310006828 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 257310006829 FeS/SAM binding site; other site 257310006830 TRAM domain; Region: TRAM; pfam01938 257310006831 HMMPfam hit to PF01938, DE TRAM domain, score 9.4e-16 257310006832 PS01278 Uncharacterized protein family UPF0004 signature. 257310006833 HMMPfam hit to PF00919, DE Uncharacterized protein family UPF0004, score 2.6e-49 257310006834 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 257310006835 active site 257310006836 3 probable transmembrane helices predicted for BB1358 by TMHMM2.0 at aa 20-42, 72-94 and 104-125 257310006837 HMMPfam hit to PF01569, DE PAP2 superfamily, score 1.6e-08 257310006838 Signal peptide predicted for BB1359 by SignalP 2.0 HMM (Signal peptide probabilty 0.625) with cleavage site probability 0.291 between residues 56 and 57; signal peptide 257310006839 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 257310006840 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 257310006841 Protein export membrane protein; Region: SecD_SecF; pfam02355 257310006842 HMMPfam hit to PF02355, DE Protein export membrane protein, score 3.3e-97 257310006843 6 probable transmembrane helices predicted for BB1359 by TMHMM2.0 at aa 17-39, 133-155, 160-182, 186-208, 244-266 and 270-292 257310006844 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 257310006845 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 257310006846 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 257310006847 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 257310006848 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 257310006849 HMMPfam hit to PF02355, DE Protein export membrane protein, score 2.1e-06 257310006850 6 probable transmembrane helices predicted for BB1360 by TMHMM2.0 at aa 7-29, 455-474, 476-498, 503-525, 559-581 and 585-607 257310006851 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 257310006852 HMMPfam hit to PF02699, DE Uncharacterized secreted proteins, YajC family COG1862, score 6.8e-26 257310006853 1 probable transmembrane helix predicted for BB1361 by TMHMM2.0 at aa 20-39 257310006854 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 257310006855 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 257310006856 HMMPfam hit to PF01702, DE Queuine tRNA-ribosyltransferase, score 4.7e-135 257310006857 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 257310006858 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 257310006859 HMMPfam hit to PF02547, DE Queuosine biosynthesis protein, score 9.4e-84 257310006860 Signal peptide predicted for BB1364 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.794 between residues 28 and 29; signal peptide 257310006861 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 257310006862 HMMPfam hit to PF02113, DE D-Ala-D-Ala carboxypeptidase 3 (S13) family, score 6.9e-66 257310006863 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257310006864 active site 257310006865 HMMPfam hit to PF00156, DE Phosphoribosyl transferase domain, score 1.8e-09 257310006866 Signal peptide predicted for BB1366 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 37 and 38; signal peptide 257310006867 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 257310006868 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310006869 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310006870 HMMPfam hit to PF03212, DE Pertactin, score 3.4e-73 257310006871 HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 2e-88 257310006872 siroheme synthase; Provisional; Region: cysG; PRK10637 257310006873 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 257310006874 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 257310006875 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 257310006876 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 257310006877 active site 257310006878 SAM binding site [chemical binding]; other site 257310006879 homodimer interface [polypeptide binding]; other site 257310006880 HMMPfam hit to PF00590, DE Tetrapyrrole (Corrin/Porphyrin) Methylases, score 7.3e-82 257310006881 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006882 PS00840 Uroporphyrin-III C-methyltransferase signature 2. 257310006883 PS00839 Uroporphyrin-III C-methyltransferase signature 1. 257310006884 Signal peptide predicted for BB1368 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.955 between residues 20 and 21; signal peptide 257310006885 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006886 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 257310006887 1 probable transmembrane helix predicted for BB1369 by TMHMM2.0 at aa 85-102 257310006888 2 probable transmembrane helices predicted for BB1370 by TMHMM2.0 at aa 44-66 and 71-93 257310006889 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 257310006890 HMMPfam hit to PF01977, DE VdcC family, score 1.3e-188 257310006891 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 257310006892 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 257310006893 N-acetyl-D-glucosamine binding site [chemical binding]; other site 257310006894 catalytic residue [active] 257310006895 1 probable transmembrane helix predicted for BB1373 by TMHMM2.0 at aa 27-49 257310006896 HMMPfam hit to PF01464, DE Transglycosylase SLT domain, score 6.2e-14 257310006897 aminotransferase; Validated; Region: PRK07337 257310006898 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310006899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310006900 homodimer interface [polypeptide binding]; other site 257310006901 catalytic residue [active] 257310006902 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 1.2e-34 257310006903 malic enzyme; Reviewed; Region: PRK12861 257310006904 Malic enzyme, N-terminal domain; Region: malic; pfam00390 257310006905 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 257310006906 putative NAD(P) binding site [chemical binding]; other site 257310006907 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 257310006908 HMMPfam hit to PF00390, DE Malic enzyme, N-terminal domain, score 1.2e-73 257310006909 HMMPfam hit to PF03949, DE Malic enzyme, NAD binding domain, score 5.1e-114 257310006910 HMMPfam hit to PF01515, DE Phosphate acetyl/butaryl transferase, score 2.1e-107 257310006911 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 257310006912 active site 257310006913 nucleophile elbow; other site 257310006914 HMMPfam hit to PF01734, DE Patatin-like phospholipase, score 4.3e-07 257310006915 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 257310006916 putative RNAase interaction site [polypeptide binding]; other site 257310006917 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 257310006918 RNA methyltransferase, RsmE family; Region: TIGR00046 257310006919 transketolase; Reviewed; Region: PRK12753 257310006920 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 257310006921 TPP-binding site [chemical binding]; other site 257310006922 dimer interface [polypeptide binding]; other site 257310006923 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 257310006924 PYR/PP interface [polypeptide binding]; other site 257310006925 dimer interface [polypeptide binding]; other site 257310006926 TPP binding site [chemical binding]; other site 257310006927 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 257310006928 HMMPfam hit to PF00456, DE Transketolase, thiamine diphosphate binding domain, score 8.6e-227 257310006929 PS00801 Transketolase signature 1. 257310006930 HMMPfam hit to PF02779, DE Transketolase, pyridine binding domain, score 2.5e-63 257310006931 HMMPfam hit to PF02780, DE Transketolase, C-terminal domain, score 3e-17 257310006932 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 257310006933 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 257310006934 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 257310006935 HMMPfam hit to PF00044, DE Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain, score 1.8e-90 257310006936 PS00071 Glyceraldehyde 3-phosphate dehydrogenase active site. 257310006937 HMMPfam hit to PF02800, DE Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain, score 7e-99 257310006938 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 257310006939 Phosphoglycerate kinase; Region: PGK; pfam00162 257310006940 substrate binding site [chemical binding]; other site 257310006941 hinge regions; other site 257310006942 ADP binding site [chemical binding]; other site 257310006943 catalytic site [active] 257310006944 HMMPfam hit to PF00162, DE Phosphoglycerate kinase, score 1.3e-175 257310006945 PS00111 Phosphoglycerate kinase signature. 257310006946 PS00017 ATP/GTP-binding site motif A (P-loop). 257310006947 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 257310006948 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 257310006949 NAD binding site [chemical binding]; other site 257310006950 homotetramer interface [polypeptide binding]; other site 257310006951 homodimer interface [polypeptide binding]; other site 257310006952 substrate binding site [chemical binding]; other site 257310006953 active site 257310006954 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.3e-08 257310006955 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 257310006956 propionate/acetate kinase; Provisional; Region: PRK12379 257310006957 HMMPfam hit to PF00871, DE Acetokinase family, score 1.2e-113 257310006958 PS01075 Acetate and butyrate kinases family signature 1. 257310006959 phosphate acetyltransferase; Provisional; Region: PRK11890 257310006960 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 257310006961 HMMPfam hit to PF01515, DE Phosphate acetyl/butaryl transferase, score 3.5e-27 257310006962 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 257310006963 glutathione S-transferase; Provisional; Region: PRK15113 257310006964 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 257310006965 C-terminal domain interface [polypeptide binding]; other site 257310006966 GSH binding site (G-site) [chemical binding]; other site 257310006967 dimer interface [polypeptide binding]; other site 257310006968 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 257310006969 N-terminal domain interface [polypeptide binding]; other site 257310006970 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 3.8e-11 257310006971 DinB family; Region: DinB; cl17821 257310006972 DinB superfamily; Region: DinB_2; pfam12867 257310006973 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310006974 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 257310006975 Coenzyme A binding pocket [chemical binding]; other site 257310006976 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 2.4e-22 257310006977 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 257310006978 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 257310006979 substrate binding site [polypeptide binding]; other site 257310006980 HMMPfam hit to PF01556, DE DnaJ C terminal region, score 2.1e-27 257310006981 AzlC protein; Region: AzlC; pfam03591 257310006982 6 probable transmembrane helices predicted for BB1393 by TMHMM2.0 at aa 24-46, 51-73, 77-99, 139-161, 171-188 and 200-222 257310006983 HMMPfam hit to PF03591, DE AzlC protein, score 1.2e-33 257310006984 3 probable transmembrane helices predicted for BB1394 by TMHMM2.0 at aa 5-27, 47-69 and 90-112 257310006985 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 257310006986 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 257310006987 10 probable transmembrane helices predicted for BB1395 by TMHMM2.0 at aa 72-94, 114-136, 156-178, 185-207, 217-239, 265-282, 292-309, 434-456, 471-493 and 526-548 257310006988 HMMPfam hit to PF01384, DE Phosphate transporter family, score 6.2e-75 257310006989 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 257310006990 MPT binding site; other site 257310006991 trimer interface [polypeptide binding]; other site 257310006992 HMMPfam hit to PF00994, DE Probable molybdopterin binding domain, score 3.5e-30 257310006993 PS01078 Molybdenum cofactor biosynthesis proteins signature 1. 257310006994 Signal peptide predicted for BB1397 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.939 between residues 20 and 21; signal peptide 257310006995 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310006996 Signal peptide predicted for BB1398 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 25 and 26; signal peptide 257310006997 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 257310006998 Peptidase family M23; Region: Peptidase_M23; pfam01551 257310006999 HMMPfam hit to PF01551, DE Peptidase family M23/M37, score 6.9e-26 257310007000 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 257310007001 rRNA binding site [nucleotide binding]; other site 257310007002 predicted 30S ribosome binding site; other site 257310007003 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 0.00034 257310007004 Uncharacterized conserved protein [Function unknown]; Region: COG3791 257310007005 formate dehydrogenase; Provisional; Region: PRK07574 257310007006 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 257310007007 dimerization interface [polypeptide binding]; other site 257310007008 ligand binding site [chemical binding]; other site 257310007009 NAD binding site [chemical binding]; other site 257310007010 catalytic site [active] 257310007011 HMMPfam hit to PF02826, DE D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain, score 1.4e-83 257310007012 PS00671 D-isomer specific 2-hydroxyacid dehydrogenases signature 3. 257310007013 PS00065 D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature. 257310007014 HMMPfam hit to PF00389, DE D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain, score 6.5e-28 257310007015 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 257310007016 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 257310007017 HMMPfam hit to PF02293, DE AmiS/UreI family transporter score 1.7e-56 257310007018 6 probable transmembrane helices predicted for BB1404 by TMHMM2.0 at aa 5-22, 29-51, 61-80, 87-109, 114-136 and 148-170 257310007019 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 257310007020 HMMPfam hit to PF03069, DE Acetamidase/Formamidase family, score 1e-224 257310007021 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 257310007022 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310007023 DNA binding residues [nucleotide binding] 257310007024 dimerization interface [polypeptide binding]; other site 257310007025 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 0.0016 257310007026 Predicted helix-turn-helix motif with score 1725.000, SD 5.06 at aa 332-353, sequence MTPARVARSLHISEHTVRSHLK 257310007027 MOSC domain; Region: MOSC; pfam03473 257310007028 HMMPfam hit to PF03473, DE MOSC domain, score 1e-09 257310007029 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 257310007030 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 257310007031 intersubunit interface [polypeptide binding]; other site 257310007032 active site 257310007033 zinc binding site [ion binding]; other site 257310007034 Na+ binding site [ion binding]; other site 257310007035 HMMPfam hit to PF01116, DE Fructose-bisphosphate aldolase class-II, score 1e-167 257310007036 PS00602 Fructose-bisphosphate aldolase class-II signature 1. 257310007037 PS00806 Fructose-bisphosphate aldolase class-II signature 2. 257310007038 Uncharacterized conserved protein [Function unknown]; Region: COG3791 257310007039 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 257310007040 ATP binding site [chemical binding]; other site 257310007041 active site 257310007042 substrate binding site [chemical binding]; other site 257310007043 HMMPfam hit to PF01259, DE SAICAR synthetase, score 1.2e-118 257310007044 PS01058 SAICAR synthetase signature 2. 257310007045 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 257310007046 peptide binding site [polypeptide binding]; other site 257310007047 2 probable transmembrane helices predicted for BB1411 by TMHMM2.0 at aa 27-49 and 70-92 257310007048 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 257310007049 toxin interface [polypeptide binding]; other site 257310007050 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 257310007051 Zn binding site [ion binding]; other site 257310007052 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 257310007053 non-specific DNA binding site [nucleotide binding]; other site 257310007054 salt bridge; other site 257310007055 sequence-specific DNA binding site [nucleotide binding]; other site 257310007056 HMMPfam hit to PF01381, DE Helix-turn-helix, score 0.00022 257310007057 Predicted helix-turn-helix motif with score 1148.000, SD 3.10 at aa 83-104, sequence LDQREAAALFGGGTNAFSRYEN 257310007058 2 probable transmembrane helices predicted for BB1413 by TMHMM2.0 at aa 26-43 and 50-69 257310007059 Signal peptide predicted for BB1414 by SignalP 2.0 HMM (Signal peptide probabilty 0.976) with cleavage site probability 0.702 between residues 31 and 32; signal peptide 257310007060 5 probable transmembrane helices predicted for BB1414 by TMHMM2.0 at aa 13-35, 45-62, 69-91, 101-122 and 135-157 257310007061 AIR carboxylase; Region: AIRC; pfam00731 257310007062 HMMPfam hit to PF00731, DE AIR carboxylase, score 1.9e-65 257310007063 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 257310007064 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257310007065 HMMPfam hit to PF02222, DE ATP-grasp domain, score 3.4e-17 257310007066 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 257310007067 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 257310007068 HMMPfam hit to PF01300, DE yrdC domain, score 3e-39 257310007069 HMMPfam hit to PF03481, DE SUA5 domain, score 4.8e-09 257310007070 Signal peptide predicted for BB1418 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 23 and 24; signal peptide 257310007071 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 257310007072 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310007073 substrate binding pocket [chemical binding]; other site 257310007074 membrane-bound complex binding site; other site 257310007075 hinge residues; other site 257310007076 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 2.5e-35 257310007077 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310007078 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310007079 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310007080 Predicted helix-turn-helix motif with score 1223.000, SD 3.35 at aa 33-54, sequence MTLPELAEATGLTKSAAQRFAH 257310007081 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 1.1e-35 257310007082 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 257310007083 agmatinase; Region: agmatinase; TIGR01230 257310007084 oligomer interface [polypeptide binding]; other site 257310007085 putative active site [active] 257310007086 Mn binding site [ion binding]; other site 257310007087 HMMPfam hit to PF00491, DE Arginase family, score 2.1e-31 257310007088 PS00148 Arginase family signature 2. 257310007089 Signal peptide predicted for BB1421 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.549 between residues 24 and 25; signal peptide 257310007090 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310007091 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257310007092 substrate binding pocket [chemical binding]; other site 257310007093 membrane-bound complex binding site; other site 257310007094 hinge residues; other site 257310007095 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 3.2e-53 257310007096 Signal peptide predicted for BB1422 by SignalP 2.0 HMM (Signal peptide probabilty 0.732) with cleavage site probability 0.599 between residues 31 and 32; signal peptide 257310007097 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 257310007098 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310007099 dimer interface [polypeptide binding]; other site 257310007100 conserved gate region; other site 257310007101 putative PBP binding loops; other site 257310007102 ABC-ATPase subunit interface; other site 257310007103 5 probable transmembrane helices predicted for BB1422 by TMHMM2.0 at aa 18-40, 52-74, 79-101, 146-168 and 183-205 257310007104 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 7e-17 257310007105 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310007106 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310007107 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310007108 Walker A/P-loop; other site 257310007109 ATP binding site [chemical binding]; other site 257310007110 Q-loop/lid; other site 257310007111 ABC transporter signature motif; other site 257310007112 Walker B; other site 257310007113 D-loop; other site 257310007114 H-loop/switch region; other site 257310007115 HMMPfam hit to PF00005, DE ABC transporter score 1.6e-65 257310007116 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007117 PS00211 ABC transporters family signature. 257310007118 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310007119 PYR/PP interface [polypeptide binding]; other site 257310007120 dimer interface [polypeptide binding]; other site 257310007121 TPP binding site [chemical binding]; other site 257310007122 hypothetical protein; Validated; Region: PRK07586 257310007123 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 257310007124 TPP-binding site [chemical binding]; other site 257310007125 dimer interface [polypeptide binding]; other site 257310007126 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 1.1e-12 257310007127 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 2.1e-11 257310007128 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 257310007129 putative active site [active] 257310007130 putative catalytic site [active] 257310007131 HMMPfam hit to PF01575, DE MaoC like domain, score 1.3e-05 257310007132 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 257310007133 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310007134 FAD binding site [chemical binding]; other site 257310007135 substrate binding pocket [chemical binding]; other site 257310007136 catalytic base [active] 257310007137 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.1e-46 257310007138 PS00073 Acyl-CoA dehydrogenases signature 2. 257310007139 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 3.9e-16 257310007140 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 2.7e-20 257310007141 thiamine pyrophosphate protein; Validated; Region: PRK08199 257310007142 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310007143 PYR/PP interface [polypeptide binding]; other site 257310007144 dimer interface [polypeptide binding]; other site 257310007145 TPP binding site [chemical binding]; other site 257310007146 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310007147 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 257310007148 TPP-binding site [chemical binding]; other site 257310007149 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 7.4e-47 257310007150 PS00187 Thiamine pyrophosphate enzymes signature. 257310007151 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 3.3e-05 257310007152 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 1.5e-53 257310007153 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310007154 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310007155 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310007156 dimerization interface [polypeptide binding]; other site 257310007157 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.4e-21 257310007158 Predicted helix-turn-helix motif with score 1676.000, SD 4.90 at aa 21-42, sequence GSFSRAAEELSLTHSAVYRQVA 257310007159 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.6e-25 257310007160 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 257310007161 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 257310007162 active site 257310007163 DNA binding site [nucleotide binding] 257310007164 Int/Topo IB signature motif; other site 257310007165 HMMPfam hit to PF02899, DE Phage integrase, N-terminal SAM-like domain, score 8.6e-18 257310007166 HMMPfam hit to PF00589, DE Phage integrase family, score 1.5e-62 257310007167 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 257310007168 putative deacylase active site [active] 257310007169 intracellular protease, PfpI family; Region: PfpI; TIGR01382 257310007170 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 257310007171 conserved cys residue [active] 257310007172 HMMPfam hit to PF01965, DE DJ-1/PfpI family, score 1.4e-52 257310007173 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 257310007174 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 257310007175 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 257310007176 HMMPfam hit to PF00768, DE D-alanyl-D-alanine carboxypeptidase, score 1.7e-68 257310007177 1 probable transmembrane helix predicted for BB1434 by TMHMM2.0 at aa 21-43 257310007178 Signal peptide predicted for BB1435 by SignalP 2.0 HMM (Signal peptide probabilty 0.773) with cleavage site probability 0.238 between residues 41 and 42; signal peptide 257310007179 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 257310007180 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310007181 putative substrate translocation pore; other site 257310007182 12 probable transmembrane helices predicted for BB1435 by TMHMM2.0 at aa 9-31, 46-68, 75-92, 102-124, 131-153, 168-186, 215-237, 247-269, 282-304, 309-331, 336-358 and 368-387 257310007183 PS00136 Serine proteases, subtilase family, aspartic acid active site. 257310007184 probable DNA repair protein; Region: TIGR03623 257310007185 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 257310007186 Part of AAA domain; Region: AAA_19; pfam13245 257310007187 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 257310007188 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 257310007189 HMMPfam hit to PF00580, DE UvrD/REP helicase, score 2.8e-35 257310007190 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007191 PS00962 Ribosomal protein S2 signature 1. 257310007192 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 257310007193 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310007194 Walker A motif; other site 257310007195 ATP binding site [chemical binding]; other site 257310007196 Walker B motif; other site 257310007197 arginine finger; other site 257310007198 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 257310007199 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 0.00013 257310007200 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007201 hypothetical protein; Validated; Region: PRK00153 257310007202 HMMPfam hit to PF02575, DE Uncharacterized BCR, YbaB family COG0718, score 1.2e-45 257310007203 recombination protein RecR; Reviewed; Region: recR; PRK00076 257310007204 RecR protein; Region: RecR; pfam02132 257310007205 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 257310007206 putative active site [active] 257310007207 putative metal-binding site [ion binding]; other site 257310007208 tetramer interface [polypeptide binding]; other site 257310007209 HMMPfam hit to PF02132, DE RecR protein, score 8.5e-11 257310007210 HMMPfam hit to PF01751, DE Toprim domain, score 1.9e-08 257310007211 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310007212 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310007213 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 2.2e-52 257310007214 Signal peptide predicted for BB1442 by SignalP 2.0 HMM (Signal peptide probabilty 0.988) with cleavage site probability 0.893 between residues 27 and 28; signal peptide 257310007215 NMT1-like family; Region: NMT1_2; pfam13379 257310007216 NMT1/THI5 like; Region: NMT1; pfam09084 257310007217 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310007218 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310007219 Walker A/P-loop; other site 257310007220 ATP binding site [chemical binding]; other site 257310007221 Q-loop/lid; other site 257310007222 ABC transporter signature motif; other site 257310007223 Walker B; other site 257310007224 D-loop; other site 257310007225 H-loop/switch region; other site 257310007226 HMMPfam hit to PF00005, DE ABC transporter score 2.4e-57 257310007227 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007228 PS00211 ABC transporters family signature. 257310007229 Signal peptide predicted for BB1444 by SignalP 2.0 HMM (Signal peptide probabilty 0.932) with cleavage site probability 0.726 between residues 32 and 33; signal peptide 257310007230 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310007231 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310007232 dimer interface [polypeptide binding]; other site 257310007233 conserved gate region; other site 257310007234 putative PBP binding loops; other site 257310007235 ABC-ATPase subunit interface; other site 257310007236 6 probable transmembrane helices predicted for BB1444 by TMHMM2.0 at aa 12-31, 46-65, 72-91, 124-146, 193-215 and 225-247 257310007237 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.015 257310007238 transaldolase-like protein; Provisional; Region: PTZ00411 257310007239 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 257310007240 active site 257310007241 dimer interface [polypeptide binding]; other site 257310007242 catalytic residue [active] 257310007243 HMMPfam hit to PF00923, DE Transaldolase, score 1.3e-126 257310007244 PS00958 Transaldolase active site. 257310007245 PS01054 Transaldolase signature 1. 257310007246 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 257310007247 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 257310007248 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 257310007249 catalytic site [active] 257310007250 subunit interface [polypeptide binding]; other site 257310007251 HMMPfam hit to PF00988, DE Carbamoyl-phosphate synthase small chain, CPSase domain, score 3.6e-59 257310007252 HMMPfam hit to PF00117, DE Glutamine amidotransferase class-I, score 2e-66 257310007253 PS00442 Glutamine amidotransferases class-I active site. 257310007254 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007255 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 257310007256 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257310007257 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 257310007258 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 257310007259 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257310007260 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257310007261 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 257310007262 IMP binding site; other site 257310007263 dimer interface [polypeptide binding]; other site 257310007264 interdomain contacts; other site 257310007265 partial ornithine binding site; other site 257310007266 HMMPfam hit to PF00289, DE Carbamoyl-phosphate synthase L chain, N-terminal domain, score 8.8e-55 257310007267 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310007268 HMMPfam hit to PF02786, DE Carbamoyl-phosphate synthase L chain, ATP binding domain, score 1.9e-115 257310007269 PS00866 Carbamoyl-phosphate synthase subdomain signature 1. 257310007270 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310007271 HMMPfam hit to PF02787, DE Carbamoyl-phosphate synthetase large chain, oligomerisation domain, score 9.6e-65 257310007272 HMMPfam hit to PF00289, DE Carbamoyl-phosphate synthase L chain, N-terminal domain, score 2.6e-22 257310007273 HMMPfam hit to PF02786, DE Carbamoyl-phosphate synthase L chain, ATP binding domain, score 7.8e-26 257310007274 PS00866 Carbamoyl-phosphate synthase subdomain signature 1. 257310007275 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310007276 HMMPfam hit to PF02142, DE MGS-like domain, score 1.4e-31 257310007277 short chain dehydrogenase; Provisional; Region: PRK07024 257310007278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310007279 NAD(P) binding site [chemical binding]; other site 257310007280 active site 257310007281 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 6.5e-39 257310007282 PS00061 Short-chain dehydrogenases/reductases family signature. 257310007283 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 257310007284 catalytic core [active] 257310007285 HMMPfam hit to PF00300, DE Phosphoglycerate mutase family, score 1.4e-28 257310007286 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310007287 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310007288 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310007289 dimerization interface [polypeptide binding]; other site 257310007290 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.6e-16 257310007291 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 9.1e-22 257310007292 PS00044 Bacterial regulatory proteins, lysR family signature. 257310007293 Predicted helix-turn-helix motif with score 1603.000, SD 4.65 at aa 16-37, sequence GNLTKAAEALSLTQPAVTAQLK 257310007294 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 257310007295 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310007296 Walker A/P-loop; other site 257310007297 ATP binding site [chemical binding]; other site 257310007298 Q-loop/lid; other site 257310007299 ABC transporter signature motif; other site 257310007300 Walker B; other site 257310007301 D-loop; other site 257310007302 H-loop/switch region; other site 257310007303 TOBE domain; Region: TOBE_2; pfam08402 257310007304 HMMPfam hit to PF00005, DE ABC transporter score 1.6e-67 257310007305 PS00211 ABC transporters family signature. 257310007306 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007307 Signal peptide predicted for BB1452 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.935 between residues 43 and 44; signal peptide 257310007308 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 257310007309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310007310 dimer interface [polypeptide binding]; other site 257310007311 conserved gate region; other site 257310007312 putative PBP binding loops; other site 257310007313 ABC-ATPase subunit interface; other site 257310007314 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310007315 dimer interface [polypeptide binding]; other site 257310007316 conserved gate region; other site 257310007317 putative PBP binding loops; other site 257310007318 ABC-ATPase subunit interface; other site 257310007319 12 probable transmembrane helices predicted for BB1452 by TMHMM2.0 at aa 13-35, 69-91, 103-125, 149-171, 192-214, 250-272, 299-321, 356-378, 390-409, 414-436, 475-497 and 531-553 257310007320 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.1e-12 257310007321 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310007322 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.0092 257310007323 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310007324 Signal peptide predicted for BB1453 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 21 and 22; signal peptide 257310007325 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 257310007326 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 0.0015 257310007327 1 probable transmembrane helix predicted for BB1453 by TMHMM2.0 at aa 7-29 257310007328 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310007329 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 257310007330 HMMPfam hit to PF00860, DE Permease family, score 2.9e-108 257310007331 11 probable transmembrane helices predicted for BB1455 by TMHMM2.0 at aa 54-76, 83-105, 110-132, 145-167, 177-196, 203-225, 249-271, 292-314, 329-351, 358-380 and 412-434 257310007332 PS01116 Xanthine/uracil permeases family signature. 257310007333 Signal peptide predicted for BB1456 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.305 between residues 37 and 38; signal peptide 257310007334 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310007335 dimerization interface [polypeptide binding]; other site 257310007336 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 257310007337 dimer interface [polypeptide binding]; other site 257310007338 putative CheW interface [polypeptide binding]; other site 257310007339 HMMPfam hit to PF00015, DE Methyl-accepting chemotaxis protein (MCP) signaling domain, score 2.6e-93 257310007340 HMMPfam hit to PF00672, DE HAMP domain, score 4.5e-13 257310007341 2 probable transmembrane helices predicted for BB1456 by TMHMM2.0 at aa 10-28 and 188-210 257310007342 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 257310007343 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 257310007344 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 257310007345 HMMPfam hit to PF03449, DE Prokaryotic transcription elongation factor, GreA/GreB, N-terminal domain, score 1.2e-37 257310007346 PS00829 Prokaryotic transcription elongation factors signature 1. 257310007347 HMMPfam hit to PF01272, DE Prokaryotic transcription elongation factor, GreA/GreB, C-terminal domain, score 6.4e-32 257310007348 PS00830 Prokaryotic transcription elongation factors signature 2. 257310007349 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007350 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 257310007351 HMMPfam hit to PF01985, DE Uncharacterised protein family UPF0044, score 0.0024 257310007352 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007353 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 257310007354 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310007355 S-adenosylmethionine binding site [chemical binding]; other site 257310007356 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01728, DE FtsJ-like methyltransferase, score 3.5e-58 257310007357 Signal peptide predicted for BB1460 by SignalP 2.0 HMM (Signal peptide probabilty 0.702) with cleavage site probability 0.419 between residues 31 and 32; signal peptide 257310007358 FtsH Extracellular; Region: FtsH_ext; pfam06480 257310007359 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 257310007360 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310007361 Walker A motif; other site 257310007362 ATP binding site [chemical binding]; other site 257310007363 Walker B motif; other site 257310007364 arginine finger; other site 257310007365 Peptidase family M41; Region: Peptidase_M41; pfam01434 257310007366 2 probable transmembrane helices predicted for BB1460 by TMHMM2.0 at aa 5-22 and 100-122 257310007367 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007368 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 3.9e-95 257310007369 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007370 PS00674 AAA-protein family signature. 257310007371 HMMPfam hit to PF01434, DE Peptidase family M41, score 6.6e-102 257310007372 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 257310007373 dihydropteroate synthase; Region: DHPS; TIGR01496 257310007374 substrate binding pocket [chemical binding]; other site 257310007375 dimer interface [polypeptide binding]; other site 257310007376 inhibitor binding site; inhibition site 257310007377 PS00792 Dihydropteroate synthase signature 1. 257310007378 HMMPfam hit to PF00809, DE Pterin binding enzyme, score 1.5e-110 257310007379 PS00793 Dihydropteroate synthase signature 2. 257310007380 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 257310007381 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 257310007382 active site 257310007383 substrate binding site [chemical binding]; other site 257310007384 metal binding site [ion binding]; metal-binding site 257310007385 HMMPfam hit to PF02878, DE Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I, score 9.8e-62 257310007386 PS00710 Phosphoglucomutase and phosphomannomutase phosphoserine signature. 257310007387 HMMPfam hit to PF02879, DE Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II, score 1.3e-35 257310007388 HMMPfam hit to PF02880, DE Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III, score 1.6e-18 257310007389 PS00190 Cytochrome c family heme-binding site signature. 257310007390 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00408, DE Phosphoglucomutase/phosphomannomutase, C-terminal domain, score 2e-08 257310007391 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 257310007392 exopolyphosphatase; Region: exo_poly_only; TIGR03706 257310007393 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 257310007394 HMMPfam hit to PF02541, DE Ppx/GppA phosphatase family, score 5.1e-86 257310007395 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 257310007396 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 257310007397 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 257310007398 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 257310007399 putative active site [active] 257310007400 catalytic site [active] 257310007401 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 257310007402 putative domain interface [polypeptide binding]; other site 257310007403 putative active site [active] 257310007404 catalytic site [active] 257310007405 HMMPfam hit to PF02503, DE Polyphosphate kinase, score 0 257310007406 Signal peptide predicted for BB1466 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.993 between residues 24 and 25; signal peptide 257310007407 PBP superfamily domain; Region: PBP_like_2; cl17296 257310007408 HMMPfam hit to PF01449, DE Phosphate-binding protein, score 3e-137 257310007409 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 257310007410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310007411 dimer interface [polypeptide binding]; other site 257310007412 conserved gate region; other site 257310007413 putative PBP binding loops; other site 257310007414 ABC-ATPase subunit interface; other site 257310007415 7 probable transmembrane helices predicted for BB1467 by TMHMM2.0 at aa 42-64, 99-121, 136-158, 165-182, 186-208, 247-269 and 308-330 257310007416 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.8e-08 257310007417 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310007418 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 257310007419 Signal peptide predicted for BB1468 by SignalP 2.0 HMM (Signal peptide probabilty 0.767) with cleavage site probability 0.395 between residues 49 and 50; signal peptide 257310007420 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310007421 dimer interface [polypeptide binding]; other site 257310007422 conserved gate region; other site 257310007423 putative PBP binding loops; other site 257310007424 ABC-ATPase subunit interface; other site 257310007425 6 probable transmembrane helices predicted for BB1468 by TMHMM2.0 at aa 24-46, 74-96, 116-138, 142-161, 192-214 and 260-282 257310007426 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.5e-14 257310007427 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310007428 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 257310007429 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 257310007430 Walker A/P-loop; other site 257310007431 ATP binding site [chemical binding]; other site 257310007432 Q-loop/lid; other site 257310007433 ABC transporter signature motif; other site 257310007434 Walker B; other site 257310007435 D-loop; other site 257310007436 H-loop/switch region; other site 257310007437 HMMPfam hit to PF00005, DE ABC transporter score 1.6e-68 257310007438 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007439 PS00211 ABC transporters family signature. 257310007440 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 257310007441 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257310007442 Signal peptide predicted for BB1471 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 21 and 22; signal peptide 257310007443 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310007444 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.7e-51 257310007445 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 257310007446 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 257310007447 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310007448 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310007449 non-specific DNA binding site [nucleotide binding]; other site 257310007450 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 257310007451 salt bridge; other site 257310007452 sequence-specific DNA binding site [nucleotide binding]; other site 257310007453 Cupin domain; Region: Cupin_2; pfam07883 257310007454 HMMPfam hit to PF01381, DE Helix-turn-helix, score 2.1e-05 257310007455 Predicted helix-turn-helix motif with score 1939.000, SD 5.79 at aa 3-24, sequence FSQRELARRAGVTHTTVAAIEK 257310007456 Signal peptide predicted for BB1475 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.932 between residues 33 and 34; signal peptide 257310007457 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 257310007458 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 257310007459 Signal peptide predicted for BB1476 by SignalP 2.0 HMM (Signal peptide probabilty 0.931) with cleavage site probability 0.926 between residues 27 and 28; signal peptide 257310007460 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 257310007461 Signal peptide predicted for BB1477 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.492 between residues 18 and 19; signal peptide 257310007462 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310007463 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310007464 Cytochrome c; Region: Cytochrom_C; pfam00034 257310007465 1 probable transmembrane helix predicted for BB1477 by TMHMM2.0 at aa 5-27 257310007466 HMMPfam hit to PF00034, DE Cytochrome c, score 0.26 257310007467 PS00190 Cytochrome c family heme-binding site signature. 257310007468 PS00190 Cytochrome c family heme-binding site signature. 257310007469 HMMPfam hit to PF00034, DE Cytochrome c, score 0.099 257310007470 Signal peptide predicted for BB1478 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 55 and 56; signal peptide 257310007471 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 257310007472 active site clefts [active] 257310007473 zinc binding site [ion binding]; other site 257310007474 dimer interface [polypeptide binding]; other site 257310007475 HMMPfam hit to PF00484, DE Carbonic anhydrase, score 4.7e-07 257310007476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310007477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310007478 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310007479 dimerization interface [polypeptide binding]; other site 257310007480 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.1e-32 257310007481 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.4e-16 257310007482 PS00044 Bacterial regulatory proteins, lysR family signature. 257310007483 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 257310007484 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 257310007485 putative active site [active] 257310007486 metal binding site [ion binding]; metal-binding site 257310007487 HMMPfam hit to PF00465, DE Iron-containing alcohol dehydrogenase, score 1.1e-55 257310007488 PS00913 Iron-containing alcohol dehydrogenases signature 1. 257310007489 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 257310007490 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 257310007491 dimer interface [polypeptide binding]; other site 257310007492 NADP binding site [chemical binding]; other site 257310007493 catalytic residues [active] 257310007494 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 8.7e-12 257310007495 PS00070 Aldehyde dehydrogenases cysteine active site. 257310007496 Cupin domain; Region: Cupin_2; pfam07883 257310007497 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 257310007498 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310007499 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310007500 Walker A/P-loop; other site 257310007501 ATP binding site [chemical binding]; other site 257310007502 Q-loop/lid; other site 257310007503 ABC transporter signature motif; other site 257310007504 Walker B; other site 257310007505 D-loop; other site 257310007506 H-loop/switch region; other site 257310007507 HMMPfam hit to PF00005, DE ABC transporter score 6.8e-42 257310007508 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007509 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310007510 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310007511 Walker A/P-loop; other site 257310007512 ATP binding site [chemical binding]; other site 257310007513 Q-loop/lid; other site 257310007514 ABC transporter signature motif; other site 257310007515 Walker B; other site 257310007516 D-loop; other site 257310007517 H-loop/switch region; other site 257310007518 HMMPfam hit to PF00005, DE ABC transporter score 3.1e-44 257310007519 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007520 PS00211 ABC transporters family signature. 257310007521 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310007522 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310007523 TM-ABC transporter signature motif; other site 257310007524 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 6.4e-32 257310007525 8 probable transmembrane helices predicted for BB1486 by TMHMM2.0 at aa 20-42, 44-66, 70-89, 102-121, 146-168, 194-216, 231-253 and 266-285 257310007526 Signal peptide predicted for BB1487 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.430 between residues 41 and 42; signal peptide 257310007527 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310007528 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310007529 TM-ABC transporter signature motif; other site 257310007530 8 probable transmembrane helices predicted for BB1487 by TMHMM2.0 at aa 10-32, 39-61, 81-103, 108-130, 155-177, 206-228, 243-265 and 272-294 257310007531 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.4e-08 257310007532 Signal peptide predicted for BB1488 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 29 and 30; signal peptide 257310007533 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310007534 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 257310007535 putative ligand binding site [chemical binding]; other site 257310007536 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 0.019 257310007537 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310007538 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310007539 Walker A/P-loop; other site 257310007540 ATP binding site [chemical binding]; other site 257310007541 Q-loop/lid; other site 257310007542 ABC transporter signature motif; other site 257310007543 Walker B; other site 257310007544 D-loop; other site 257310007545 H-loop/switch region; other site 257310007546 HMMPfam hit to PF00005, DE ABC transporter score 1.1e-33 257310007547 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310007548 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007549 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310007550 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310007551 Walker A/P-loop; other site 257310007552 ATP binding site [chemical binding]; other site 257310007553 Q-loop/lid; other site 257310007554 ABC transporter signature motif; other site 257310007555 Walker B; other site 257310007556 D-loop; other site 257310007557 H-loop/switch region; other site 257310007558 HMMPfam hit to PF00005, DE ABC transporter score 9.2e-45 257310007559 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007560 Signal peptide predicted for BB1491 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.797 between residues 17 and 18; signal peptide 257310007561 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310007562 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310007563 TM-ABC transporter signature motif; other site 257310007564 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 4.7e-12 257310007565 9 probable transmembrane helices predicted for BB1491 by TMHMM2.0 at aa 7-24, 28-47, 54-76, 81-103, 110-132, 147-166, 198-220, 235-257 and 264-286 257310007566 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310007567 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310007568 TM-ABC transporter signature motif; other site 257310007569 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 7.3e-35 257310007570 7 probable transmembrane helices predicted for BB1492 by TMHMM2.0 at aa 7-29, 57-79, 92-114, 138-160, 189-211, 226-248 and 255-277 257310007571 Signal peptide predicted for BB1493 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.672 between residues 23 and 24; signal peptide 257310007572 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257310007573 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 257310007574 putative ligand binding site [chemical binding]; other site 257310007575 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 7.8e-05 257310007576 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 257310007577 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 2e-08 257310007578 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310007579 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310007580 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310007581 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 3.4e-08 257310007582 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310007583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310007584 NAD(P) binding site [chemical binding]; other site 257310007585 active site 257310007586 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.8e-80 257310007587 PS00061 Short-chain dehydrogenases/reductases family signature. 257310007588 Signal peptide predicted for BB1497 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 23 and 24; signal peptide 257310007589 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310007590 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.8e-89 257310007591 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310007592 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 4.3e-05 257310007593 PS00120 Lipases, serine active site. 257310007594 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 257310007595 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 257310007596 HMMPfam hit to PF00743, DE Flavin-binding monooxygenase-like, score 1.1e-18 257310007597 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 257310007598 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310007599 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310007600 HMMPfam hit to PF02737, DE 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain, score 2.3e-33 257310007601 PS00067 3-hydroxyacyl-CoA dehydrogenase signature. 257310007602 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 5.5e-22 257310007603 enoyl-CoA hydratase; Provisional; Region: PRK06144 257310007604 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310007605 substrate binding site [chemical binding]; other site 257310007606 oxyanion hole (OAH) forming residues; other site 257310007607 trimer interface [polypeptide binding]; other site 257310007608 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 2.2e-35 257310007609 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310007610 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310007611 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 2.1e-70 257310007612 Signal peptide predicted for BB1503 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.969 between residues 30 and 31; signal peptide 257310007613 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257310007614 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 257310007615 ligand binding site [chemical binding]; other site 257310007616 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 257310007617 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 0.00018 257310007618 Signal peptide predicted for BB1504 by SignalP 2.0 HMM (Signal peptide probabilty 0.919) with cleavage site probability 0.645 between residues 26 and 27; signal peptide 257310007619 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310007620 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310007621 TM-ABC transporter signature motif; other site 257310007622 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 5e-27 257310007623 7 probable transmembrane helices predicted for BB1504 by TMHMM2.0 at aa 13-35, 64-86, 93-115, 141-163, 191-213, 228-250 and 257-279 257310007624 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310007625 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310007626 TM-ABC transporter signature motif; other site 257310007627 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 9.6e-31 257310007628 7 probable transmembrane helices predicted for BB1505 by TMHMM2.0 at aa 5-27, 31-53, 58-80, 129-151, 188-210, 225-247 and 268-290 257310007629 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310007630 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310007631 Walker A/P-loop; other site 257310007632 ATP binding site [chemical binding]; other site 257310007633 Q-loop/lid; other site 257310007634 ABC transporter signature motif; other site 257310007635 Walker B; other site 257310007636 D-loop; other site 257310007637 H-loop/switch region; other site 257310007638 HMMPfam hit to PF00005, DE ABC transporter score 1.1e-47 257310007639 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007640 PS00211 ABC transporters family signature. 257310007641 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310007642 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310007643 Walker A/P-loop; other site 257310007644 ATP binding site [chemical binding]; other site 257310007645 Q-loop/lid; other site 257310007646 ABC transporter signature motif; other site 257310007647 Walker B; other site 257310007648 D-loop; other site 257310007649 H-loop/switch region; other site 257310007650 HMMPfam hit to PF00005, DE ABC transporter score 1.9e-45 257310007651 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007652 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257310007653 Amidase; Region: Amidase; cl11426 257310007654 HMMPfam hit to PF01425, DE Amidase, score 1.3e-70 257310007655 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 257310007656 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310007657 Transcriptional regulators [Transcription]; Region: FadR; COG2186 257310007658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310007659 DNA-binding site [nucleotide binding]; DNA binding site 257310007660 FCD domain; Region: FCD; pfam07729 257310007661 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 0.0002 257310007662 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 257310007663 Signal peptide predicted for BB1512 by SignalP 2.0 HMM (Signal peptide probabilty 0.936) with cleavage site probability 0.563 between residues 34 and 35; signal peptide 257310007664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310007665 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310007666 NAD(P) binding site [chemical binding]; other site 257310007667 active site 257310007668 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 3.3e-74 257310007669 PS00061 Short-chain dehydrogenases/reductases family signature. 257310007670 short chain dehydrogenase; Provisional; Region: PRK12829 257310007671 classical (c) SDRs; Region: SDR_c; cd05233 257310007672 NAD(P) binding site [chemical binding]; other site 257310007673 active site 257310007674 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.9e-62 257310007675 PS00061 Short-chain dehydrogenases/reductases family signature. 257310007676 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310007677 1 probable transmembrane helix predicted for BB1513 by TMHMM2.0 at aa 7-29 257310007678 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310007679 Signal peptide predicted for BB1514 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.928 between residues 23 and 24; signal peptide 257310007680 DctM-like transporters; Region: DctM; pfam06808 257310007681 13 probable transmembrane helices predicted for BB1514 by TMHMM2.0 at aa 7-29, 56-78, 85-107, 112-131, 138-160, 170-192, 213-235, 239-256, 277-299, 304-326, 333-355, 360-382 and 395-417 257310007682 HMMPfam hit to PF00597, DE DedA family, score 1.3e-29 257310007683 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 257310007684 Signal peptide predicted for BB1515 by SignalP 2.0 HMM (Signal peptide probabilty 0.951) with cleavage site probability 0.723 between residues 29 and 30; signal peptide 257310007685 4 probable transmembrane helices predicted for BB1515 by TMHMM2.0 at aa 5-27, 47-65, 86-108 and 123-145 257310007686 Signal peptide predicted for BB1516 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.962 between residues 41 and 42; signal peptide 257310007687 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310007688 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 257310007689 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 8.9e-99 257310007690 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 257310007691 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 257310007692 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 257310007693 HMMPfam hit to PF01557, DE Fumarylacetoacetate (FAA) hydrolase family, score 2.6e-76 257310007694 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007695 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310007696 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310007697 DNA-binding site [nucleotide binding]; DNA binding site 257310007698 FCD domain; Region: FCD; pfam07729 257310007699 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 2.3e-05 257310007700 PS00043 Bacterial regulatory proteins, gntR family signature. 257310007701 Predicted helix-turn-helix motif with score 1041.000, SD 2.73 at aa 34-55, sequence VREEDLANQLGVSRTPVREALI 257310007702 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310007703 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310007704 putative DNA binding site [nucleotide binding]; other site 257310007705 putative Zn2+ binding site [ion binding]; other site 257310007706 AsnC family; Region: AsnC_trans_reg; pfam01037 257310007707 HMMPfam hit to PF01037, DE AsnC family, score 3.4e-28 257310007708 Predicted helix-turn-helix motif with score 1879.000, SD 5.59 at aa 22-43, sequence LSQRELADSVNLSASAVNRRIA 257310007709 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 257310007710 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310007711 catalytic residue [active] 257310007712 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 8.6e-09 257310007713 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 257310007714 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 257310007715 metal binding site [ion binding]; metal-binding site 257310007716 putative dimer interface [polypeptide binding]; other site 257310007717 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 3.6e-76 257310007718 Signal peptide predicted for BB1523 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.987 between residues 22 and 23; signal peptide 257310007719 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 257310007720 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310007721 substrate binding pocket [chemical binding]; other site 257310007722 membrane-bound complex binding site; other site 257310007723 hinge residues; other site 257310007724 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 2.8e-27 257310007725 PS01039 Bacterial extracellular substrate-binding proteins, family 3 signature. 257310007726 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 257310007727 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310007728 conserved gate region; other site 257310007729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310007730 putative PBP binding loops; other site 257310007731 dimer interface [polypeptide binding]; other site 257310007732 ABC-ATPase subunit interface; other site 257310007733 8 probable transmembrane helices predicted for BB1524 by TMHMM2.0 at aa 31-53, 100-122, 143-165, 192-209, 229-251, 271-293, 343-362 and 372-394 257310007734 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 7.6e-12 257310007735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310007736 dimer interface [polypeptide binding]; other site 257310007737 conserved gate region; other site 257310007738 putative PBP binding loops; other site 257310007739 ABC-ATPase subunit interface; other site 257310007740 8 probable transmembrane helices predicted for BB1525 by TMHMM2.0 at aa 44-66, 113-130, 142-164, 174-196, 217-239, 286-305, 312-331 and 346-368 257310007741 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4.6e-17 257310007742 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310007743 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310007744 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310007745 Walker A/P-loop; other site 257310007746 ATP binding site [chemical binding]; other site 257310007747 Q-loop/lid; other site 257310007748 ABC transporter signature motif; other site 257310007749 Walker B; other site 257310007750 D-loop; other site 257310007751 H-loop/switch region; other site 257310007752 HMMPfam hit to PF00005, DE ABC transporter score 2.6e-64 257310007753 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007754 PS00211 ABC transporters family signature. 257310007755 3 probable transmembrane helices predicted for BB1527 by TMHMM2.0 at aa 20-42, 52-74 and 76-98 257310007756 aspartate aminotransferase; Provisional; Region: PRK06207 257310007757 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310007758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310007759 homodimer interface [polypeptide binding]; other site 257310007760 catalytic residue [active] 257310007761 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 1.9e-07 257310007762 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 257310007763 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 257310007764 ligand binding site [chemical binding]; other site 257310007765 NAD binding site [chemical binding]; other site 257310007766 dimerization interface [polypeptide binding]; other site 257310007767 catalytic site [active] 257310007768 HMMPfam hit to PF02826, DE D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain, score 3e-54 257310007769 PS00065 D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature. 257310007770 HMMPfam hit to PF00389, DE D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain, score 2.4e-20 257310007771 allantoate amidohydrolase; Reviewed; Region: PRK12891 257310007772 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 257310007773 active site 257310007774 metal binding site [ion binding]; metal-binding site 257310007775 dimer interface [polypeptide binding]; other site 257310007776 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 0.00027 257310007777 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 257310007778 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 257310007779 HMMPfam hit to PF03328, DE HpcH/HpaI aldolase family, score 3.4e-15 257310007780 Creatinine amidohydrolase; Region: Creatininase; pfam02633 257310007781 HMMPfam hit to PF02633, DE Creatinine amidohydrolase, score 2.1e-10 257310007782 Signal peptide predicted for BB1534 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.824 between residues 26 and 27; signal peptide 257310007783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310007784 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.2e-29 257310007785 Signal peptide predicted for BB1535 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.814 between residues 23 and 24; signal peptide 257310007786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310007787 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.1e-36 257310007788 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310007789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310007790 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310007791 dimerization interface [polypeptide binding]; other site 257310007792 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.4e-25 257310007793 Predicted helix-turn-helix motif with score 1472.000, SD 4.20 at aa 15-36, sequence GSITAAAQHIGLTQAAASAQIQ 257310007794 PS00044 Bacterial regulatory proteins, lysR family signature. 257310007795 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2e-32 257310007796 Signal peptide predicted for BB1537 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.980 between residues 24 and 25; signal peptide 257310007797 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 257310007798 PS00307 Legume lectins beta-chain signature. 257310007799 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 257310007800 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 257310007801 TrkA-C domain; Region: TrkA_C; pfam02080 257310007802 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 257310007803 11 probable transmembrane helices predicted for BB1538 by TMHMM2.0 at aa 10-29, 36-55, 65-87, 96-118, 166-188, 388-406, 411-433, 446-465, 480-502, 509-531 and 546-568 257310007804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310007805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310007806 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 257310007807 putative dimerization interface [polypeptide binding]; other site 257310007808 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.9e-32 257310007809 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.2e-16 257310007810 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007811 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 257310007812 PS00192 Cytochrome b/b6 heme-ligand signature. 257310007813 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 257310007814 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 257310007815 active site residue [active] 257310007816 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 257310007817 active site residue [active] 257310007818 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 257310007819 active site residue [active] 257310007820 HMMPfam hit to PF00581, DE Rhodanese-like domain, score 0.00013 257310007821 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 257310007822 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 257310007823 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310007824 catalytic residue [active] 257310007825 HMMPfam hit to PF01053, DE Cys/Met metabolism PLP-dependent enzyme, score 3.5e-108 257310007826 PS00868 Cys/Met metabolism enzymes pyridoxal-phosphate attachment site. 257310007827 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_5; cd06255 257310007828 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 257310007829 putative active site [active] 257310007830 Zn binding site [ion binding]; other site 257310007831 Signal peptide predicted for BB1544 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 30 and 31; signal peptide 257310007832 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310007833 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 9.1e-100 257310007834 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 257310007835 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 257310007836 molybdopterin cofactor binding site [chemical binding]; other site 257310007837 substrate binding site [chemical binding]; other site 257310007838 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 257310007839 molybdopterin cofactor binding site; other site 257310007840 HMMPfam hit to PF00384, DE Molybdopterin oxidoreductase, score 5.6e-110 257310007841 HMMPfam hit to PF01568, DE Molydopterin dinucleotide binding domain, score 2.1e-40 257310007842 PS00932 Prokaryotic molybdopterin oxidoreductases signature 3. 257310007843 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 257310007844 Predicted amidohydrolase [General function prediction only]; Region: COG0388 257310007845 putative active site [active] 257310007846 catalytic triad [active] 257310007847 putative dimer interface [polypeptide binding]; other site 257310007848 HMMPfam hit to PF00795, DE Carbon-nitrogen hydrolase, score 6.6e-57 257310007849 PS01227 Uncharacterized protein family UPF0012 signature. 257310007850 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310007851 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310007852 Walker A/P-loop; other site 257310007853 ATP binding site [chemical binding]; other site 257310007854 Q-loop/lid; other site 257310007855 ABC transporter signature motif; other site 257310007856 Walker B; other site 257310007857 D-loop; other site 257310007858 H-loop/switch region; other site 257310007859 HMMPfam hit to PF00005, DE ABC transporter score 1e-46 257310007860 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007861 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310007862 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310007863 Walker A/P-loop; other site 257310007864 ATP binding site [chemical binding]; other site 257310007865 Q-loop/lid; other site 257310007866 ABC transporter signature motif; other site 257310007867 Walker B; other site 257310007868 D-loop; other site 257310007869 H-loop/switch region; other site 257310007870 HMMPfam hit to PF00005, DE ABC transporter score 8.8e-55 257310007871 PS00211 ABC transporters family signature. 257310007872 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007873 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310007874 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310007875 TM-ABC transporter signature motif; other site 257310007876 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 5e-19 257310007877 9 probable transmembrane helices predicted for BB1549 by TMHMM2.0 at aa 20-42, 46-68, 73-90, 95-117, 122-139, 174-196, 225-247, 262-284 and 297-319 257310007878 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310007879 TM-ABC transporter signature motif; other site 257310007880 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 2.9e-38 257310007881 8 probable transmembrane helices predicted for BB1550 by TMHMM2.0 at aa 4-26, 33-55, 65-87, 96-118, 138-160, 193-212, 227-249 and 256-278 257310007882 Signal peptide predicted for BB1551 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.967 between residues 24 and 25; signal peptide 257310007883 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310007884 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 257310007885 ligand binding site [chemical binding]; other site 257310007886 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 0.0028 257310007887 Signal peptide predicted for BB1552 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.479 between residues 21 and 22; signal peptide 257310007888 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 257310007889 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 257310007890 putative active site [active] 257310007891 HMMPfam hit to PF00275, DE EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase), score 8.5e-22 257310007892 PA2301 is an uncharacterized Pseudomonas aeruginosa protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's...; Region: PA2301; cd04939 257310007893 putative deacylase active site [active] 257310007894 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257310007895 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257310007896 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 257310007897 Walker A/P-loop; other site 257310007898 ATP binding site [chemical binding]; other site 257310007899 Q-loop/lid; other site 257310007900 ABC transporter signature motif; other site 257310007901 Walker B; other site 257310007902 D-loop; other site 257310007903 H-loop/switch region; other site 257310007904 HMMPfam hit to PF00005, DE ABC transporter score 2e-62 257310007905 PS00211 ABC transporters family signature. 257310007906 PS00017 ATP/GTP-binding site motif A (P-loop). 257310007907 HMMPfam hit to PF00664, DE ABC transporter transmembrane region, score 1.6e-07 257310007908 5 probable transmembrane helices predicted for BB1556 by TMHMM2.0 at aa 37-59, 79-101, 157-179, 184-206 and 268-290 257310007909 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 257310007910 1 probable transmembrane helix predicted for BB1558 by TMHMM2.0 at aa 30-52 257310007911 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310007912 Signal peptide predicted for BB1559 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.610 between residues 22 and 23; signal peptide 257310007913 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310007914 Signal peptide predicted for BB1560 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.670 between residues 25 and 26; signal peptide 257310007915 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 257310007916 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310007917 Flagellar regulator YcgR; Region: YcgR; pfam07317 257310007918 PilZ domain; Region: PilZ; pfam07238 257310007919 Signal peptide predicted for BB1562 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 32 and 33; signal peptide 257310007920 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 257310007921 dimerization interface [polypeptide binding]; other site 257310007922 substrate binding site [chemical binding]; other site 257310007923 active site 257310007924 calcium binding site [ion binding]; other site 257310007925 aldehyde dehydrogenase family 7 member; Region: PLN02315 257310007926 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 257310007927 tetrameric interface [polypeptide binding]; other site 257310007928 NAD binding site [chemical binding]; other site 257310007929 catalytic residues [active] 257310007930 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 3e-132 257310007931 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310007932 Signal peptide predicted for BB1564 by SignalP 2.0 HMM (Signal peptide probabilty 0.758) with cleavage site probability 0.228 between residues 37 and 38; signal peptide 257310007933 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257310007934 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 257310007935 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 1.3e-27 257310007936 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 257310007937 carboxyltransferase (CT) interaction site; other site 257310007938 biotinylation site [posttranslational modification]; other site 257310007939 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 2.6e-21 257310007940 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 257310007941 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 257310007942 active site 257310007943 catalytic residues [active] 257310007944 metal binding site [ion binding]; metal-binding site 257310007945 homodimer binding site [polypeptide binding]; other site 257310007946 HMMPfam hit to PF00682, DE HMGL-like, score 2.3e-09 257310007947 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310007948 HMMPfam hit to PF02436, DE Conserved carboxylase domain, score 1.2e-11 257310007949 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 257310007950 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 257310007951 NAD(P) binding site [chemical binding]; other site 257310007952 active site 257310007953 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310007954 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310007955 DNA-binding site [nucleotide binding]; DNA binding site 257310007956 UTRA domain; Region: UTRA; pfam07702 257310007957 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 2.6e-15 257310007958 Predicted helix-turn-helix motif with score 1399.000, SD 3.95 at aa 49-70, sequence PGDNELASQFGVSVGTVRRAIA 257310007959 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 257310007960 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257310007961 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257310007962 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 257310007963 HMMPfam hit to PF00289, DE Carbamoyl-phosphate synthase L chain, N-terminal domain, score 3.5e-42 257310007964 HMMPfam hit to PF02786, DE Carbamoyl-phosphate synthase L chain, ATP binding domain, score 3.4e-98 257310007965 PS00866 Carbamoyl-phosphate synthase subdomain signature 1. 257310007966 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310007967 HMMPfam hit to PF02785, DE Biotin carboxylase C-terminal domain, score 2.7e-57 257310007968 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 257310007969 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 257310007970 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 257310007971 HMMPfam hit to PF01039, DE Carboxyl transferase domain, score 8.9e-80 257310007972 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 257310007973 carboxyltransferase (CT) interaction site; other site 257310007974 biotinylation site [posttranslational modification]; other site 257310007975 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 2.1e-14 257310007976 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 257310007977 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 257310007978 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 257310007979 CoA binding domain; Region: CoA_binding_2; pfam13380 257310007980 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 257310007981 HMMPfam hit to PF02629, DE CoA binding domain, score 3.1e-07 257310007982 Signal peptide predicted for BB1577 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.991 between residues 26 and 27; signal peptide 257310007983 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310007984 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 257310007985 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 4.8e-75 257310007986 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310007987 4 probable transmembrane helices predicted for BB1578 by TMHMM2.0 at aa 34-56, 66-83, 105-127 and 142-164 257310007988 Signal peptide predicted for BB1579 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.503 between residues 23 and 24; signal peptide 257310007989 DctM-like transporters; Region: DctM; pfam06808 257310007990 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310007991 11 probable transmembrane helices predicted for BB1579 by TMHMM2.0 at aa 5-27, 42-64, 85-107, 139-161, 168-190, 205-227, 234-256, 271-293, 313-347, 362-384 and 396-418 257310007992 Signal peptide predicted for BB1580 by SignalP 2.0 HMM (Signal peptide probabilty 0.926) with cleavage site probability 0.327 between residues 28 and 29; signal peptide 257310007993 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310007994 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310007995 12 probable transmembrane helices predicted for BB1580 by TMHMM2.0 at aa 13-35, 50-72, 77-99, 104-126, 138-160, 170-189, 219-241, 254-276, 283-302, 308-330, 343-365 and 375-392 257310007996 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 257310007997 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310007998 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 7.7e-71 257310007999 PS00216 Sugar transport proteins signature 1. 257310008000 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 257310008001 PS00213 Lipocalin signature. 257310008002 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 257310008003 HMMPfam hit to PF01689, DE Hydratase/decarboxylase, score 4.5e-113 257310008004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310008005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310008006 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 257310008007 putative effector binding pocket; other site 257310008008 dimerization interface [polypeptide binding]; other site 257310008009 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.7e-16 257310008010 Predicted helix-turn-helix motif with score 1282.000, SD 3.55 at aa 35-56, sequence GNFSEVARRIGANPAMVSKRIA 257310008011 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.1e-38 257310008012 Signal peptide predicted for BB1585 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.953 between residues 27 and 28; signal peptide 257310008013 EamA-like transporter family; Region: EamA; pfam00892 257310008014 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310008015 EamA-like transporter family; Region: EamA; pfam00892 257310008016 10 probable transmembrane helices predicted for BB1585 by TMHMM2.0 at aa 13-30, 40-62, 75-97, 101-120, 125-142, 146-168, 180-199, 209-228, 235-257 and 261-283 257310008017 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 7.4e-08 257310008018 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 2.9e-15 257310008019 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 257310008020 [2Fe-2S] cluster binding site [ion binding]; other site 257310008021 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 4.1e-24 257310008022 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 257310008023 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 257310008024 HMMPfam hit to PF01557, DE Fumarylacetoacetate (FAA) hydrolase family, score 6.7e-49 257310008025 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 257310008026 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 257310008027 HMMPfam hit to PF02423, DE Ornithine cyclodeaminase/mu-crystallin family, score 1.1e-43 257310008028 Cupin domain; Region: Cupin_2; pfam07883 257310008029 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 257310008030 HMMPfam hit to PF00866, DE Ring hydroxylating beta subunit, score 2.1e-06 257310008031 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 257310008032 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 257310008033 iron-sulfur cluster [ion binding]; other site 257310008034 [2Fe-2S] cluster binding site [ion binding]; other site 257310008035 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 257310008036 putative alpha subunit interface [polypeptide binding]; other site 257310008037 putative active site [active] 257310008038 putative substrate binding site [chemical binding]; other site 257310008039 Fe binding site [ion binding]; other site 257310008040 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 1.3e-30 257310008041 HMMPfam hit to PF00848, DE Ring hydroxylating alpha subunit (catalytic domain), score 2.3e-05 257310008042 Signal peptide predicted for BB1592 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.900 between residues 38 and 39; signal peptide 257310008043 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310008044 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 257310008045 putative ligand binding site [chemical binding]; other site 257310008046 1 probable transmembrane helix predicted for BB1592 by TMHMM2.0 at aa 16-38 257310008047 Signal peptide predicted for BB1593 by SignalP 2.0 HMM (Signal peptide probabilty 0.982) with cleavage site probability 0.564 between residues 54 and 55; signal peptide 257310008048 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310008049 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310008050 TM-ABC transporter signature motif; other site 257310008051 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.7e-23 257310008052 8 probable transmembrane helices predicted for BB1593 by TMHMM2.0 at aa 5-27, 34-56, 61-83, 95-117, 137-159, 185-207, 222-244 and 257-276 257310008053 Signal peptide predicted for BB1594 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.675 between residues 23 and 24; signal peptide 257310008054 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310008055 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310008056 TM-ABC transporter signature motif; other site 257310008057 9 probable transmembrane helices predicted for BB1594 by TMHMM2.0 at aa 7-24, 28-50, 55-77, 81-103, 105-124, 155-177, 205-227, 247-269 and 282-304 257310008058 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 4.1e-12 257310008059 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310008060 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310008061 Walker A/P-loop; other site 257310008062 ATP binding site [chemical binding]; other site 257310008063 Q-loop/lid; other site 257310008064 ABC transporter signature motif; other site 257310008065 Walker B; other site 257310008066 D-loop; other site 257310008067 H-loop/switch region; other site 257310008068 HMMPfam hit to PF00005, DE ABC transporter score 7.5e-51 257310008069 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008070 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310008071 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310008072 Walker A/P-loop; other site 257310008073 ATP binding site [chemical binding]; other site 257310008074 Q-loop/lid; other site 257310008075 ABC transporter signature motif; other site 257310008076 Walker B; other site 257310008077 D-loop; other site 257310008078 H-loop/switch region; other site 257310008079 HMMPfam hit to PF00005, DE ABC transporter score 1.1e-51 257310008080 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008081 PS00211 ABC transporters family signature. 257310008082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310008083 NAD(P) binding site [chemical binding]; other site 257310008084 active site 257310008085 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00106, DE short chain dehydrogenase, score 3.1e-54 257310008086 Signal peptide predicted for BB1598 by SignalP 2.0 HMM (Signal peptide probabilty 0.790) with cleavage site probability 0.567 between residues 32 and 33; signal peptide 257310008087 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 257310008088 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 257310008089 HMMPfam hit to PF01019, DE Gamma-glutamyltranspeptidase, score 3.4e-182 257310008090 Signal peptide predicted for BB1599 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.955 between residues 22 and 23; signal peptide 257310008091 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310008092 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4e-100 257310008093 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310008094 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310008095 DNA-binding site [nucleotide binding]; DNA binding site 257310008096 FCD domain; Region: FCD; pfam07729 257310008097 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 3e-11 257310008098 6 probable transmembrane helices predicted for BB1601 by TMHMM2.0 at aa 20-42, 49-71, 102-124, 181-203, 256-278 and 325-347 257310008099 Signal peptide predicted for BB1603 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.559 between residues 22 and 23; signal peptide 257310008100 Signal peptide predicted for BB1604 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.571 between residues 25 and 26; signal peptide 257310008101 1 probable transmembrane helix predicted for BB1604 by TMHMM2.0 at aa 11-33 257310008102 Signal peptide predicted for BB1605 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.936 between residues 30 and 31; signal peptide 257310008103 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310008104 homotrimer interaction site [polypeptide binding]; other site 257310008105 putative active site [active] 257310008106 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310008107 homotrimer interaction site [polypeptide binding]; other site 257310008108 putative active site [active] 257310008109 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310008110 homotrimer interaction site [polypeptide binding]; other site 257310008111 putative active site [active] 257310008112 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 4.1e-05 257310008113 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 1.6e-05 257310008114 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 0.00041 257310008115 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 257310008116 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 257310008117 FMN binding site [chemical binding]; other site 257310008118 active site 257310008119 substrate binding site [chemical binding]; other site 257310008120 catalytic residue [active] 257310008121 HMMPfam hit to PF00724, DE NADH:flavin oxidoreductase / NADH oxidase family, score 1.6e-81 257310008122 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310008123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310008124 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 257310008125 putative effector binding pocket; other site 257310008126 dimerization interface [polypeptide binding]; other site 257310008127 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.8e-16 257310008128 PS00044 Bacterial regulatory proteins, lysR family signature. 257310008129 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.3e-30 257310008130 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 257310008131 Type III secretion needle MxiH like; Region: MxiH; pfam09392 257310008132 type III secretion system locus 257310008133 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 257310008134 1 probable transmembrane helix predicted for BB1611 by TMHMM2.0 at aa 138-160 257310008135 Signal peptide predicted for BB1612 by SignalP 2.0 HMM (Signal peptide probabilty 0.682) with cleavage site probability 0.399 between residues 44 and 45; signal peptide 257310008136 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 257310008137 FHIPEP family; Region: FHIPEP; pfam00771 257310008138 HMMPfam hit to PF00771, DE FHIPEP family, score 0 257310008139 7 probable transmembrane helices predicted for BB1612 by TMHMM2.0 at aa 21-43, 48-70, 77-99, 114-136, 205-227, 242-264 and 297-319 257310008140 PS00994 Bacterial export FHIPEP family signature. 257310008141 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 257310008142 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 257310008143 type III secretion effector delivery regulator, TyeA family; Region: type_III_tyeA; TIGR02511 257310008144 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 257310008145 Signal peptide predicted for BB1621 by SignalP 2.0 HMM (Signal peptide probabilty 0.784) with cleavage site probability 0.466 between residues 18 and 19; signal peptide 257310008146 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 257310008147 2 probable transmembrane helices predicted for BB1621 by TMHMM2.0 at aa 146-168 and 265-287 257310008148 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 257310008149 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 257310008150 binding surface 257310008151 TPR motif; other site 257310008152 Type III secretion needle MxiH like; Region: MxiH; pfam09392 257310008153 PS00213 Lipocalin signature. 257310008154 Signal peptide predicted for BB1625 by SignalP 2.0 HMM (Signal peptide probabilty 0.927) with cleavage site probability 0.216 between residues 31 and 32; signal peptide 257310008155 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 257310008156 HMMPfam hit to PF01514, DE Secretory protein of YscJ/FliF family, score 6.6e-101 257310008157 2 probable transmembrane helices predicted for BB1625 by TMHMM2.0 at aa 13-35 and 228-250 257310008158 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310008159 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 257310008160 Flagellar assembly protein FliH; Region: FliH; pfam02108 257310008161 type III secretion system ATPase; Provisional; Region: PRK06936 257310008162 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 257310008163 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 257310008164 Walker A motif/ATP binding site; other site 257310008165 Walker B motif; other site 257310008166 HMMPfam hit to PF02874, DE ATP synthase alpha/beta family, beta-barrel domain, score 2.6e-07 257310008167 HMMPfam hit to PF00006, DE ATP synthase alpha/beta family, nucleotide-binding domain, score 3.2e-151 257310008168 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008169 PS00152 ATP synthase alpha and beta subunits signature. 257310008170 Type III secretion protein YscO; Region: YscO; pfam07321 257310008171 Signal peptide predicted for BB1631 by SignalP 2.0 HMM (Signal peptide probabilty 0.637) with cleavage site probability 0.212 between residues 12 and 13; signal peptide 257310008172 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 257310008173 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 257310008174 HMMPfam hit to PF01052, DE Surface presentation of antigens (SPOA) protein, score 1.8e-08 257310008175 Signal peptide predicted for BB1632 by SignalP 2.0 HMM (Signal peptide probabilty 0.958) with cleavage site probability 0.258 between residues 37 and 38; signal peptide 257310008176 type III secretion system protein YscR; Provisional; Region: PRK12797 257310008177 4 probable transmembrane helices predicted for BB1632 by TMHMM2.0 at aa 10-32, 53-75, 148-170 and 177-199 257310008178 HMMPfam hit to PF00813, DE FliP family, score 3.3e-103 257310008179 PS01061 Flagella transport protein fliP family signature 2. 257310008180 Signal peptide predicted for BB1633 by SignalP 2.0 HMM (Signal peptide probabilty 0.816) with cleavage site probability 0.787 between residues 31 and 32; signal peptide 257310008181 type III secretion protein, HrpO family; Region: fliQ_rel_III; TIGR01403 257310008182 HMMPfam hit to PF01313, DE Bacterial export proteins, family 3, score 4e-32 257310008183 2 probable transmembrane helices predicted for BB1633 by TMHMM2.0 at aa 19-41 and 51-73 257310008184 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 257310008185 HMMPfam hit to PF01311, DE Bacterial export proteins, family 1, score 2.6e-59 257310008186 5 probable transmembrane helices predicted for BB1634 by TMHMM2.0 at aa 12-34, 83-105, 130-152, 184-206 and 219-241 257310008187 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 257310008188 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 257310008189 HMMPfam hit to PF01312, DE FlhB HrpN YscU SpaS Family, score 9e-123 257310008190 4 probable transmembrane helices predicted for BB1635 by TMHMM2.0 at aa 36-58, 90-112, 136-158 and 183-205 257310008191 Tir chaperone protein (CesT) family; Region: CesT; cl08444 257310008192 Signal peptide predicted for BB1637 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.999 between residues 28 and 29; signal peptide 257310008193 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 257310008194 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 257310008195 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 257310008196 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 257310008197 1 probable transmembrane helix predicted for BB1637 by TMHMM2.0 at aa 7-29 257310008198 HMMPfam hit to PF03958, DE NolW-like, score 2.1e-58 257310008199 HMMPfam hit to PF00263, DE Bacterial type II and III secretion system protein, score 1e-71 257310008200 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 257310008201 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310008202 Predicted helix-turn-helix motif with score 1314.000, SD 3.66 at aa 129-150, sequence LSYEEAAALLSVPVGTIRSRLS 257310008203 HMMPfam hit to PF00776, , score 6.4e-16 257310008204 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 257310008205 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 257310008206 Signal peptide predicted for BB1642 by SignalP 2.0 HMM (Signal peptide probabilty 0.939) with cleavage site probability 0.358 between residues 40 and 41; signal peptide 257310008207 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 257310008208 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310008209 dimerization interface [polypeptide binding]; other site 257310008210 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 257310008211 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 257310008212 HMMPfam hit to PF00672, DE HAMP domain, score 1.1e-06 257310008213 2 probable transmembrane helices predicted for BB1642 by TMHMM2.0 at aa 15-37 and 340-362 257310008214 Signal peptide predicted for BB1643 by SignalP 2.0 HMM (Signal peptide probabilty 0.827) with cleavage site probability 0.376 between residues 36 and 37; signal peptide 257310008215 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310008216 putative substrate translocation pore; other site 257310008217 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310008218 14 probable transmembrane helices predicted for BB1643 by TMHMM2.0 at aa 20-42, 190-212, 229-248, 376-398, 424-443, 458-480, 493-515, 548-570, 577-599, 632-654, 666-688, 693-712, 719-741 and 784-806 257310008219 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0023 257310008220 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 257310008221 alanine racemase; Reviewed; Region: alr; PRK00053 257310008222 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 257310008223 catalytic residue [active] 257310008224 HMMPfam hit to PF00842, DE Alanine racemase, score 1.9e-51 257310008225 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 257310008226 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 257310008227 ATP binding site [chemical binding]; other site 257310008228 Mg2+ binding site [ion binding]; other site 257310008229 G-X-G motif; other site 257310008230 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 0.15 257310008231 Signal peptide predicted for BB1646 by SignalP 2.0 HMM (Signal peptide probabilty 0.792) with cleavage site probability 0.738 between residues 25 and 26; signal peptide 257310008232 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 257310008233 anti sigma factor interaction site; other site 257310008234 regulatory phosphorylation site [posttranslational modification]; other site 257310008235 HMMPfam hit to PF01740, DE STAS domain, score 5e-21 257310008236 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 257310008237 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 257310008238 putative active site [active] 257310008239 catalytic site [active] 257310008240 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 257310008241 putative active site [active] 257310008242 catalytic site [active] 257310008243 HMMPfam hit to PF00614, DE Phospholipase D. Active site motif, score 7.6e-05 257310008244 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310008245 HMMPfam hit to PF00614, DE Phospholipase D. Active site motif, score 0.13 257310008246 2 probable transmembrane helices predicted for BB1647 by TMHMM2.0 at aa 40-62 and 69-91 257310008247 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 257310008248 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310008249 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 257310008250 Coenzyme A binding pocket [chemical binding]; other site 257310008251 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 1.4e-14 257310008252 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 257310008253 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310008254 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310008255 PS00037 Myb DNA-binding domain repeat signature 1. 257310008256 HMMPfam hit to PF03212, DE Pertactin, score 0.0021 257310008257 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 3.2e-54 257310008258 threonine-phosphate decarboxylase; Provisional; Region: PRK08056 257310008259 Predicted metalloprotease [General function prediction only]; Region: COG2321 257310008260 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 257310008261 PS00142 Neutral zinc metallopeptidases, zinc-binding region signature. 257310008262 1 probable transmembrane helix predicted for BB1653 by TMHMM2.0 at aa 20-42 257310008263 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 257310008264 HMMPfam hit to PF01300, DE yrdC domain, score 1.1e-41 257310008265 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 257310008266 Peptidase family M50; Region: Peptidase_M50; pfam02163 257310008267 active site 257310008268 putative substrate binding region [chemical binding]; other site 257310008269 5 probable transmembrane helices predicted for BB1655 by TMHMM2.0 at aa 12-34, 65-87, 107-129, 144-166 and 187-209 257310008270 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 257310008271 dihydrodipicolinate synthase; Region: dapA; TIGR00674 257310008272 dimer interface [polypeptide binding]; other site 257310008273 active site 257310008274 catalytic residue [active] 257310008275 HMMPfam hit to PF00701, DE Dihydrodipicolinate synthetase family, score 3.2e-133 257310008276 PS00665 Dihydrodipicolinate synthetase signature 1. 257310008277 PS00666 Dihydrodipicolinate synthetase signature 2. 257310008278 Signal peptide predicted for BB1657 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.416 between residues 30 and 31; signal peptide 257310008279 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 257310008280 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 257310008281 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310008282 Signal peptide predicted for BB1658 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 35 and 36; signal peptide 257310008283 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 257310008284 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00419, DE Fimbrial protein, score 6.1e-12 257310008285 Cupin superfamily protein; Region: Cupin_4; pfam08007 257310008286 Cupin-like domain; Region: Cupin_8; pfam13621 257310008287 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 257310008288 MutS domain I; Region: MutS_I; pfam01624 257310008289 MutS domain II; Region: MutS_II; pfam05188 257310008290 MutS domain III; Region: MutS_III; pfam05192 257310008291 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 257310008292 Walker A/P-loop; other site 257310008293 ATP binding site [chemical binding]; other site 257310008294 Q-loop/lid; other site 257310008295 ABC transporter signature motif; other site 257310008296 Walker B; other site 257310008297 D-loop; other site 257310008298 H-loop/switch region; other site 257310008299 HMMPfam hit to PF00488, DE DNA mismatch repair proteins, mutS family, score 3e-128 257310008300 PS00486 DNA mismatch repair proteins mutS family signature. 257310008301 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008302 HMMPfam hit to PF01624, DE MutS family, N-terminal DNA binding domain, score 1.4e-161 257310008303 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 257310008304 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 257310008305 dimer interface [polypeptide binding]; other site 257310008306 active site 257310008307 Int/Topo IB signature motif; other site 257310008308 Prophage 257310008309 HMMPfam hit to PF00589, DE Phage integrase family, score 1.4e-05 257310008310 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 257310008311 Signal peptide predicted for BB1664 by SignalP 2.0 HMM (Signal peptide probabilty 0.974) with cleavage site probability 0.924 between residues 21 and 22; signal peptide 257310008312 1 probable transmembrane helix predicted for BB1664 by TMHMM2.0 at aa 6-28 257310008313 Signal peptide predicted for BB1665 by SignalP 2.0 HMM (Signal peptide probabilty 0.787) with cleavage site probability 0.223 between residues 24 and 25; signal peptide 257310008314 1 probable transmembrane helix predicted for BB1665 by TMHMM2.0 at aa 7-29 257310008315 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 257310008316 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 257310008317 cofactor binding site; other site 257310008318 DNA binding site [nucleotide binding] 257310008319 substrate interaction site [chemical binding]; other site 257310008320 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 257310008321 HMMPfam hit to PF00145, DE C-5 cytosine-specific DNA methylase, score 4.3e-05 257310008322 PS00389 ATP synthase delta (OSCP) subunit signature. 257310008323 PS00142 Neutral zinc metallopeptidases, zinc-binding region signature. 257310008324 Methyltransferase domain; Region: Methyltransf_25; pfam13649 257310008325 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 257310008326 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008327 1 probable transmembrane helix predicted for BB1676 by TMHMM2.0 at aa 52-74 257310008328 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310008329 non-specific DNA binding site [nucleotide binding]; other site 257310008330 salt bridge; other site 257310008331 Predicted transcriptional regulator [Transcription]; Region: COG2932 257310008332 sequence-specific DNA binding site [nucleotide binding]; other site 257310008333 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 257310008334 Catalytic site [active] 257310008335 HMMPfam hit to PF00717, DE Peptidase family S24, score 2.2e-09 257310008336 HMMPfam hit to PF01381, DE Helix-turn-helix, score 4.6e-09 257310008337 Predicted helix-turn-helix motif with score 2114.000, SD 6.39 at aa 52-73, sequence ISQSELARRVKVSRGAISLWLT 257310008338 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 257310008339 Helix-turn-helix domain; Region: HTH_36; pfam13730 257310008340 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 257310008341 Protein of unknown function (DUF497); Region: DUF497; pfam04365 257310008342 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 257310008343 active site 257310008344 AAA domain; Region: AAA_33; pfam13671 257310008345 AAA domain; Region: AAA_17; pfam13207 257310008346 HMMPfam hit to PF01844, DE HNH endonuclease, score 0.0052 257310008347 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008348 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008349 Phage terminase, small subunit; Region: Terminase_4; cl01525 257310008350 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 257310008351 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03354, DE Phage Terminase, score 1.3e-88 257310008352 Phage portal protein; Region: Phage_portal; pfam04860 257310008353 Phage-related protein [Function unknown]; Region: COG4695 257310008354 Signal peptide predicted for BB1694 by SignalP 2.0 HMM (Signal peptide probabilty 0.859) with cleavage site probability 0.531 between residues 20 and 21; signal peptide 257310008355 Clp protease; Region: CLP_protease; pfam00574 257310008356 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 257310008357 oligomer interface [polypeptide binding]; other site 257310008358 active site residues [active] 257310008359 HMMPfam hit to PF00574, DE Clp protease, score 1.1e-05 257310008360 PS00881 Protein splicing signature. 257310008361 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 257310008362 Phage capsid family; Region: Phage_capsid; pfam05065 257310008363 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 257310008364 oligomerization interface [polypeptide binding]; other site 257310008365 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 257310008366 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 257310008367 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 257310008368 Pleckstrin homology-like domain; Region: PH-like; cl17171 257310008369 Signal peptide predicted for BB1705 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.942 between residues 22 and 23; no significant database matches; signal peptide 257310008370 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 257310008371 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 257310008372 4 probable transmembrane helices predicted for BB1706 by TMHMM2.0 at aa 52-71, 272-294, 304-326 and 338-360 257310008373 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 257310008374 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; pfam06805 257310008375 Phage-related protein, tail component [Function unknown]; Region: COG4733 257310008376 Putative phage tail protein; Region: Phage-tail_3; pfam13550 257310008377 2 probable transmembrane helices predicted for BB1710 by TMHMM2.0 at aa 89-111 and 118-140 257310008378 Signal peptide predicted for BB1711 by SignalP 2.0 HMM (Signal peptide probabilty 0.818) with cleavage site probability 0.763 between residues 25 and 26; signal peptide 257310008379 Signal peptide predicted for BB1713 by SignalP 2.0 HMM (Signal peptide probabilty 0.824) with cleavage site probability 0.751 between residues 36 and 37; signal peptide 257310008380 3 probable transmembrane helices predicted for BB1713 by TMHMM2.0 at aa 20-42, 55-77 and 100-122 257310008381 Signal peptide predicted for BB1715 by SignalP 2.0 HMM (Signal peptide probabilty 0.984) with cleavage site probability 0.430 between residues 22 and 23; signal peptide 257310008382 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 257310008383 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02586, DE Uncharacterized ACR, COG2135, score 1.9e-05 257310008384 Dodecin; Region: Dodecin; pfam07311 257310008385 Predicted flavoprotein [General function prediction only]; Region: COG0431 257310008386 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 257310008387 HMMPfam hit to PF03358, DE NADPH-dependent FMN reductase, score 2.7e-24 257310008388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 257310008389 2 probable transmembrane helices predicted for BB1720 by TMHMM2.0 at aa 116-133 and 143-165 257310008390 Signal peptide predicted for BB1721 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.646 between residues 23 and 24; signal peptide 257310008391 Imelysin; Region: Peptidase_M75; cl09159 257310008392 Signal peptide predicted for BB1722 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.713 between residues 19 and 20; signal peptide 257310008393 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 257310008394 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 257310008395 PS00190 Cytochrome c family heme-binding site signature. 257310008396 PS00190 Cytochrome c family heme-binding site signature. 257310008397 Signal peptide predicted for BB1723 by SignalP 2.0 HMM (Signal peptide probabilty 0.990) with cleavage site probability 0.987 between residues 39 and 40; signal peptide 257310008398 Imelysin; Region: Peptidase_M75; cl09159 257310008399 Signal peptide predicted for BB1724 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.803 between residues 24 and 25; signal peptide 257310008400 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 257310008401 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 257310008402 PS00018 EF-hand calcium-binding domain. 257310008403 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 257310008404 Mechanosensitive ion channel; Region: MS_channel; pfam00924 257310008405 3 probable transmembrane helices predicted for BB1725 by TMHMM2.0 at aa 20-42, 57-79 and 86-108 257310008406 HMMPfam hit to PF00924, DE Mechanosensitive ion channel, score 6.2e-52 257310008407 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310008408 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 257310008409 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310008410 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 8.8e-08 257310008411 Predicted helix-turn-helix motif with score 1869.000, SD 5.55 at aa 51-72, sequence LSVTDIARQTGIQRPTIYRLLA 257310008412 Signal peptide predicted for BB1727 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.994 between residues 32 and 33; signal peptide 257310008413 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310008414 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-133 257310008415 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 257310008416 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 257310008417 HMMPfam hit to PF00588, DE SpoU rRNA Methylase family, score 1.9e-10 257310008418 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 257310008419 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 257310008420 active site 257310008421 dimerization interface [polypeptide binding]; other site 257310008422 HMMPfam hit to PF00459, DE Inositol monophosphatase family, score 1.4e-72 257310008423 PS00629 Inositol monophosphatase family signature 1. 257310008424 PS00630 Inositol monophosphatase family signature 2. 257310008425 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 257310008426 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 257310008427 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 257310008428 Transporter associated domain; Region: CorC_HlyC; smart01091 257310008429 HMMPfam hit to PF03741, DE Integral membrane protein TerC family, score 5.8e-81 257310008430 6 probable transmembrane helices predicted for BB1730 by TMHMM2.0 at aa 34-56, 69-91, 106-123, 143-162, 172-194 and 207-229 257310008431 HMMPfam hit to PF00571, DE CBS domain, score 0.00082 257310008432 HMMPfam hit to PF00571, DE CBS domain, score 0.007 257310008433 HMMPfam hit to PF03471, DE Transporter associated domain, score 1.2e-23 257310008434 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 257310008435 7 probable transmembrane helices predicted for BB1731 by TMHMM2.0 at aa 13-35, 48-65, 86-105, 110-132, 207-226, 236-258 and 269-286 257310008436 HMMPfam hit to PF02673, DE Bacitracin resistance protein BacA, score 8.5e-34 257310008437 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 257310008438 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 257310008439 putative active site [active] 257310008440 putative metal binding site [ion binding]; other site 257310008441 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 1.1e-10 257310008442 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 257310008443 substrate binding site [chemical binding]; other site 257310008444 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00160, DE Cyclophilin type peptidyl-prolyl cis-trans isomerase, score 7.3e-59 257310008445 PS00170 Cyclophilin-type peptidyl-prolyl cis-trans isomerase signature. 257310008446 Signal peptide predicted for BB1734 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.971 between residues 26 and 27; signal peptide 257310008447 TPR repeat; Region: TPR_11; pfam13414 257310008448 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 257310008449 binding surface 257310008450 TPR motif; other site 257310008451 HMMPfam hit to PF00515, DE TPR Domain, score 6.7e-06 257310008452 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 257310008453 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 257310008454 active site 257310008455 HIGH motif; other site 257310008456 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 257310008457 KMSKS motif; other site 257310008458 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 257310008459 tRNA binding surface [nucleotide binding]; other site 257310008460 anticodon binding site; other site 257310008461 HMMPfam hit to PF01406, DE tRNA synthetases class I (C), score 1.1e-182 257310008462 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 257310008463 endonuclease III; Region: ENDO3c; smart00478 257310008464 minor groove reading motif; other site 257310008465 helix-hairpin-helix signature motif; other site 257310008466 substrate binding pocket [chemical binding]; other site 257310008467 active site 257310008468 HMMPfam hit to PF00730, DE HhH-GPD superfamily base excision DNA repair protein, score 3.3e-05 257310008469 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 257310008470 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 257310008471 HMMPfam hit to PF03255, DE Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit, score 4.4e-86 257310008472 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 257310008473 TilS substrate binding domain; Region: TilS; pfam09179 257310008474 aspartate kinase; Reviewed; Region: PRK06635 257310008475 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 257310008476 putative nucleotide binding site [chemical binding]; other site 257310008477 putative catalytic residues [active] 257310008478 putative Mg ion binding site [ion binding]; other site 257310008479 putative aspartate binding site [chemical binding]; other site 257310008480 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 257310008481 putative allosteric regulatory site; other site 257310008482 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 257310008483 putative allosteric regulatory residue; other site 257310008484 HMMPfam hit to PF00696, DE Amino acid kinase family, score 2.8e-76 257310008485 PS00324 Aspartokinase signature. 257310008486 HMMPfam hit to PF01842, DE ACT domain, score 1.7e-08 257310008487 HMMPfam hit to PF01842, DE ACT domain, score 1.1e-10 257310008488 Cupin domain; Region: Cupin_2; pfam07883 257310008489 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008490 NIPSNAP; Region: NIPSNAP; pfam07978 257310008491 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 257310008492 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310008493 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310008494 HMMPfam hit to PF02737, DE 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain, score 5.3e-28 257310008495 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 1e-05 257310008496 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 257310008497 4 probable transmembrane helices predicted for BB1743 by TMHMM2.0 at aa 13-35, 57-79, 91-113 and 133-155 257310008498 Signal peptide predicted for BB1744 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.458 between residues 21 and 22; signal peptide 257310008499 DctM-like transporters; Region: DctM; pfam06808 257310008500 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310008501 11 probable transmembrane helices predicted for BB1744 by TMHMM2.0 at aa 7-29, 44-66, 78-100, 138-160, 167-189, 225-256, 268-290, 305-327, 334-353, 363-385 and 397-419 257310008502 HMMPfam hit to PF00597, DE DedA family, score 4e-06 257310008503 Signal peptide predicted for BB1745 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.986 between residues 22 and 23; signal peptide 257310008504 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310008505 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310008506 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 1.7e-61 257310008507 pyrimidine utilization protein D; Region: RutD; TIGR03611 257310008508 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 2e-25 257310008509 putative L-aspartate dehydrogenase; Provisional; Region: PRK13301 257310008510 Signal peptide predicted for BB1747 by SignalP 2.0 HMM (Signal peptide probabilty 0.986) with cleavage site probability 0.626 between residues 23 and 24; signal peptide 257310008511 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 257310008512 Domain of unknown function DUF108; Region: DUF108; pfam01958 257310008513 HMMPfam hit to PF01958, DE Domain of unknown function DUF108, score 5.3e-44 257310008514 short chain dehydrogenase; Provisional; Region: PRK06138 257310008515 classical (c) SDRs; Region: SDR_c; cd05233 257310008516 NAD(P) binding site [chemical binding]; other site 257310008517 active site 257310008518 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 8.9e-87 257310008519 PS00061 Short-chain dehydrogenases/reductases family signature. 257310008520 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310008521 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310008522 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 0.0015 257310008523 Predicted helix-turn-helix motif with score 1410.000, SD 3.99 at aa 30-51, sequence FRFQQIAQALDCTRGNIHYHYR 257310008524 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310008525 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 257310008526 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310008527 dimerization interface [polypeptide binding]; other site 257310008528 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.7e-35 257310008529 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.8e-21 257310008530 PS00044 Bacterial regulatory proteins, lysR family signature. 257310008531 Predicted helix-turn-helix motif with score 1623.000, SD 4.71 at aa 32-53, sequence GSVSRAARLMGMTQSAASKMLR 257310008532 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 257310008533 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 257310008534 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 0.03 257310008535 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 257310008536 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 257310008537 active site 257310008538 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 257310008539 Signal peptide predicted for BB1753 by SignalP 2.0 HMM (Signal peptide probabilty 0.973) with cleavage site probability 0.689 between residues 30 and 31; signal peptide 257310008540 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310008541 dimer interface [polypeptide binding]; other site 257310008542 conserved gate region; other site 257310008543 putative PBP binding loops; other site 257310008544 ABC-ATPase subunit interface; other site 257310008545 6 probable transmembrane helices predicted for BB1753 by TMHMM2.0 at aa 7-29, 58-80, 93-115, 145-167, 198-220 and 240-262 257310008546 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4e-08 257310008547 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008548 Signal peptide predicted for BB1754 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.857 between residues 29 and 30; signal peptide 257310008549 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 257310008550 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310008551 dimer interface [polypeptide binding]; other site 257310008552 conserved gate region; other site 257310008553 putative PBP binding loops; other site 257310008554 ABC-ATPase subunit interface; other site 257310008555 6 probable transmembrane helices predicted for BB1754 by TMHMM2.0 at aa 7-29, 70-92, 99-121, 136-158, 179-201 and 236-258 257310008556 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.2e-12 257310008557 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310008558 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 257310008559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310008560 Walker A/P-loop; other site 257310008561 ATP binding site [chemical binding]; other site 257310008562 Q-loop/lid; other site 257310008563 ABC transporter signature motif; other site 257310008564 Walker B; other site 257310008565 D-loop; other site 257310008566 H-loop/switch region; other site 257310008567 TOBE domain; Region: TOBE_2; pfam08402 257310008568 HMMPfam hit to PF00005, DE ABC transporter score 1.2e-64 257310008569 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008570 PS00211 ABC transporters family signature. 257310008571 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 257310008572 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 257310008573 active site 257310008574 FMN binding site [chemical binding]; other site 257310008575 substrate binding site [chemical binding]; other site 257310008576 putative catalytic residue [active] 257310008577 HMMPfam hit to PF00724, DE NADH:flavin oxidoreductase / NADH oxidase family, score 3.3e-42 257310008578 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310008579 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310008580 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310008581 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 8e-41 257310008582 Predicted helix-turn-helix motif with score 1388.000, SD 3.91 at aa 31-52, sequence LTLAEAAYRTGLSRAAARRVLL 257310008583 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 257310008584 CoA binding domain; Region: CoA_binding_2; pfam13380 257310008585 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 257310008586 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 257310008587 HMMPfam hit to PF02629, DE CoA binding domain, score 5.2e-07 257310008588 Signal peptide predicted for BB1759 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 41 and 42; signal peptide 257310008589 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310008590 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 5.2e-128 257310008591 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310008592 homotrimer interaction site [polypeptide binding]; other site 257310008593 putative active site [active] 257310008594 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 2.7e-20 257310008595 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 257310008596 active site 257310008597 catalytic site [active] 257310008598 HMMPfam hit to PF01575, DE MaoC like domain, score 2.2e-06 257310008599 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 257310008600 active site 257310008601 catalytic site [active] 257310008602 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310008603 active site 2 [active] 257310008604 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310008605 dimerization interface [polypeptide binding]; other site 257310008606 putative DNA binding site [nucleotide binding]; other site 257310008607 putative Zn2+ binding site [ion binding]; other site 257310008608 HMMPfam hit to PF01022, DE Bacterial regulatory protein, arsR family, score 4e-09 257310008609 Predicted helix-turn-helix motif with score 1176.000, SD 3.19 at aa 41-62, sequence GVCAGQFERCGLSQSTVSTHLA 257310008610 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 257310008611 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 257310008612 FMN binding site [chemical binding]; other site 257310008613 active site 257310008614 substrate binding site [chemical binding]; other site 257310008615 catalytic residue [active] 257310008616 HMMPfam hit to PF00724, DE NADH:flavin oxidoreductase / NADH oxidase family, score 4.9e-78 257310008617 2 probable transmembrane helices predicted for BB1766 by TMHMM2.0 at aa 34-56 and 66-88 257310008618 N-glycosyltransferase; Provisional; Region: PRK11204 257310008619 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 257310008620 DXD motif; other site 257310008621 4 probable transmembrane helices predicted for BB1767 by TMHMM2.0 at aa 12-34, 304-326, 338-357 and 372-394 257310008622 HMMPfam hit to PF00535, DE Glycosyl transferase, score 3.4e-32 257310008623 Signal peptide predicted for BB1768 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.808 between residues 26 and 27; signal peptide 257310008624 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 257310008625 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 257310008626 putative active site [active] 257310008627 putative metal binding site [ion binding]; other site 257310008628 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 257310008629 Signal peptide predicted for BB1769 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.692 between residues 36 and 37; signal peptide 257310008630 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 257310008631 TPR motif; other site 257310008632 TPR repeat; Region: TPR_11; pfam13414 257310008633 binding surface 257310008634 Tetratricopeptide repeat; Region: TPR_16; pfam13432 257310008635 2 probable transmembrane helices predicted for BB1770 by TMHMM2.0 at aa 7-29 and 49-71 257310008636 MarR family; Region: MarR_2; cl17246 257310008637 Transcriptional regulators [Transcription]; Region: MarR; COG1846 257310008638 HMMPfam hit to PF01047, DE MarR family, score 6.5e-17 257310008639 Signal peptide predicted for BB1772 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 25 and 26; signal peptide 257310008640 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310008641 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 257310008642 putative ligand binding site [chemical binding]; other site 257310008643 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310008644 TM-ABC transporter signature motif; other site 257310008645 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310008646 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310008647 TM-ABC transporter signature motif; other site 257310008648 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.5e-19 257310008649 16 probable transmembrane helices predicted for BB1773 by TMHMM2.0 at aa 10-32, 39-56, 66-88, 101-120, 143-165, 186-208, 231-253, 260-282, 325-347, 354-376, 402-421, 426-448, 470-492, 519-541, 561-583 and 596-615 257310008650 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 3.8e-12 257310008651 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310008652 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310008653 Walker A/P-loop; other site 257310008654 ATP binding site [chemical binding]; other site 257310008655 Q-loop/lid; other site 257310008656 ABC transporter signature motif; other site 257310008657 Walker B; other site 257310008658 D-loop; other site 257310008659 H-loop/switch region; other site 257310008660 HMMPfam hit to PF00005, DE ABC transporter score 1.4e-52 257310008661 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008662 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310008663 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310008664 Walker A/P-loop; other site 257310008665 ATP binding site [chemical binding]; other site 257310008666 Q-loop/lid; other site 257310008667 ABC transporter signature motif; other site 257310008668 Walker B; other site 257310008669 D-loop; other site 257310008670 H-loop/switch region; other site 257310008671 HMMPfam hit to PF00005, DE ABC transporter score 1.8e-40 257310008672 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008673 PS00211 ABC transporters family signature. 257310008674 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310008675 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310008676 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 257310008677 HMMPfam hit to PF00034, DE Cytochrome c, score 0.22 257310008678 PS00190 Cytochrome c family heme-binding site signature. 257310008679 PS00190 Cytochrome c family heme-binding site signature. 257310008680 HMMPfam hit to PF00034, DE Cytochrome c, score 0.0036 257310008681 PS00190 Cytochrome c family heme-binding site signature. 257310008682 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 257310008683 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310008684 catalytic loop [active] 257310008685 iron binding site [ion binding]; other site 257310008686 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 257310008687 HMMPfam hit to PF01799, DE [2Fe-2S] binding domain, score 9e-23 257310008688 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 7.6e-07 257310008689 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310008690 hypothetical protein; Provisional; Region: PRK06847 257310008691 Signal peptide predicted for BB1778 by SignalP 2.0 HMM (Signal peptide probabilty 0.973) with cleavage site probability 0.516 between residues 23 and 24; signal peptide 257310008692 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 257310008693 HMMPfam hit to PF01360, DE Monooxygenase, score 5.8e-33 257310008694 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 257310008695 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310008696 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 2e-09 257310008697 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 257310008698 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 257310008699 Isochorismatase family; Region: Isochorismatase; pfam00857 257310008700 catalytic triad [active] 257310008701 conserved cis-peptide bond; other site 257310008702 HMMPfam hit to PF00857, DE Isochorismatase family, score 1.4e-07 257310008703 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310008704 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310008705 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 257310008706 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 257310008707 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310008708 HMMPfam hit to PF01315, DE Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain, score 0.00059 257310008709 HMMPfam hit to PF02738, DE Aldehyde oxidase and xanthine dehydrogenase, molybdopterin binding domain, score 3e-07 257310008710 PS00030 Eukaryotic RNA-binding region RNP-1 signature. 257310008711 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 257310008712 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 257310008713 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 257310008714 FAD binding pocket [chemical binding]; other site 257310008715 FAD binding motif [chemical binding]; other site 257310008716 phosphate binding motif [ion binding]; other site 257310008717 beta-alpha-beta structure motif; other site 257310008718 NAD binding pocket [chemical binding]; other site 257310008719 6 probable transmembrane helices predicted for BB1784 by TMHMM2.0 at aa 23-42, 62-81, 102-124, 159-176, 189-211 and 215-237 257310008720 HMMPfam hit to PF00970, DE Oxidoreductase FAD-binding domain, score 0.00023 257310008721 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 0.0028 257310008722 Signal peptide predicted for BB1785 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.946 between residues 32 and 33; signal peptide 257310008723 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 257310008724 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310008725 N-terminal plug; other site 257310008726 ligand-binding site [chemical binding]; other site 257310008727 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 7.9e-13 257310008728 Transcriptional regulators [Transcription]; Region: MarR; COG1846 257310008729 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 257310008730 MarR family; Region: MarR_2; cl17246 257310008731 HMMPfam hit to PF01047, DE MarR family, score 6.1e-19 257310008732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310008733 Signal peptide predicted for BB1787 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.833 between residues 21 and 22; signal peptide 257310008734 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.7e-42 257310008735 Sulfatase; Region: Sulfatase; cl17466 257310008736 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 257310008737 HMMPfam hit to PF00884, DE Sulfatase, score 5.2e-54 257310008738 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008739 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 257310008740 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 257310008741 acyl-activating enzyme (AAE) consensus motif; other site 257310008742 putative AMP binding site [chemical binding]; other site 257310008743 putative active site [active] 257310008744 putative CoA binding site [chemical binding]; other site 257310008745 HMMPfam hit to PF00501, DE AMP-binding protein, score 1.1e-130 257310008746 PS00455 AMP-binding domain signature. 257310008747 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310008748 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 257310008749 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 257310008750 dimer interface [polypeptide binding]; other site 257310008751 active site 257310008752 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 2.3e-63 257310008753 PS00099 Thiolases active site. 257310008754 PS00737 Thiolases signature 2. 257310008755 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 1.8e-85 257310008756 PS00098 Thiolases acyl-enzyme intermediate signature. 257310008757 Signal peptide predicted for BB1792 by SignalP 2.0 HMM (Signal peptide probabilty 0.991) with cleavage site probability 0.938 between residues 28 and 29; signal peptide 257310008758 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 257310008759 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310008760 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310008761 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310008762 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310008763 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310008764 substrate binding site [chemical binding]; other site 257310008765 oxyanion hole (OAH) forming residues; other site 257310008766 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3.5e-07 257310008767 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 1e-05 257310008768 HMMPfam hit to PF02737, DE 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain, score 3.2e-32 257310008769 Signal peptide predicted for BB1793 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 25 and 26; signal peptide 257310008770 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 257310008771 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310008772 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310008773 substrate binding site [chemical binding]; other site 257310008774 oxyanion hole (OAH) forming residues; other site 257310008775 trimer interface [polypeptide binding]; other site 257310008776 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 257310008777 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310008778 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310008779 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 1.6e-30 257310008780 HMMPfam hit to PF02737, DE 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain, score 1.7e-35 257310008781 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.5e-48 257310008782 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 257310008783 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 257310008784 dimer interface [polypeptide binding]; other site 257310008785 active site 257310008786 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 2.2e-52 257310008787 PS00099 Thiolases active site. 257310008788 PS00737 Thiolases signature 2. 257310008789 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 1.2e-44 257310008790 Signal peptide predicted for BB1796 by SignalP 2.0 HMM (Signal peptide probabilty 0.978) with cleavage site probability 0.310 between residues 26 and 27; signal peptide 257310008791 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 257310008792 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310008793 active site 257310008794 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 257310008795 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 6.7e-30 257310008796 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 0.0005 257310008797 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310008798 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310008799 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 9.2e-18 257310008800 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 257310008801 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310008802 DNA binding residues [nucleotide binding] 257310008803 dimerization interface [polypeptide binding]; other site 257310008804 HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 5.7e-05 257310008805 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 257310008806 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310008807 DNA binding residues [nucleotide binding] 257310008808 HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 4.9e-14 257310008809 Predicted helix-turn-helix motif with score 1305.000, SD 3.63 at aa 153-174, sequence KTMREISREVGTSVATVKSHAR 257310008810 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 257310008811 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 257310008812 active site 257310008813 substrate binding site [chemical binding]; other site 257310008814 metal binding site [ion binding]; metal-binding site 257310008815 HMMPfam hit to PF02878, DE Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I, score 7.2e-08 257310008816 HMMPfam hit to PF02879, DE Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II, score 1.5e-24 257310008817 HMMPfam hit to PF02880, DE Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III, score 4.1e-26 257310008818 HMMPfam hit to PF00408, DE Phosphoglucomutase/phosphomannomutase, C-terminal domain, score 0.039 257310008819 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 257310008820 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 257310008821 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 257310008822 dimer interface [polypeptide binding]; other site 257310008823 active site 257310008824 HMMPfam hit to PF00342, DE Phosphoglucose isomerase, score 3.1e-39 257310008825 serine O-acetyltransferase; Region: cysE; TIGR01172 257310008826 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 257310008827 trimer interface [polypeptide binding]; other site 257310008828 active site 257310008829 substrate binding site [chemical binding]; other site 257310008830 CoA binding site [chemical binding]; other site 257310008831 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 6.4 257310008832 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 27 257310008833 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 1.6e+02 257310008834 12 probable transmembrane helices predicted for BB1803 by TMHMM2.0 at aa 7-29, 52-74, 81-98, 108-130, 143-165, 169-191, 223-245, 255-277, 286-308, 318-340, 347-369 and 379-396 257310008835 PS00267 Tachykinin family signature. 257310008836 NAD-dependent deacetylase; Provisional; Region: PRK05333 257310008837 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 257310008838 HMMPfam hit to PF02146, DE Sir2 family, score 2.3e-44 257310008839 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 257310008840 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 257310008841 active site 257310008842 putative lithium-binding site [ion binding]; other site 257310008843 substrate binding site [chemical binding]; other site 257310008844 HMMPfam hit to PF00459, DE Inositol monophosphatase family, score 1.5e-31 257310008845 succinic semialdehyde dehydrogenase; Region: PLN02278 257310008846 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 257310008847 tetramerization interface [polypeptide binding]; other site 257310008848 NAD(P) binding site [chemical binding]; other site 257310008849 catalytic residues [active] 257310008850 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 6e-206 257310008851 PS00070 Aldehyde dehydrogenases cysteine active site. 257310008852 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310008853 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 257310008854 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310008855 inhibitor-cofactor binding pocket; inhibition site 257310008856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310008857 catalytic residue [active] 257310008858 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00202, DE Aminotransferase class-III, score 3e-161 257310008859 PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site. 257310008860 PS00636 Nt-dnaJ domain signature. 257310008861 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 257310008862 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310008863 DNA-binding site [nucleotide binding]; DNA binding site 257310008864 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310008865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310008866 homodimer interface [polypeptide binding]; other site 257310008867 catalytic residue [active] 257310008868 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 4.4e-13 257310008869 Protein of unknown function DUF72; Region: DUF72; pfam01904 257310008870 HMMPfam hit to PF01904, DE Protein of unknown function DUF72, score 2.2e-16 257310008871 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 257310008872 Part of AAA domain; Region: AAA_19; pfam13245 257310008873 Family description; Region: UvrD_C_2; pfam13538 257310008874 HMMPfam hit to PF00580, DE UvrD/REP helicase, score 8.6e-98 257310008875 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008876 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 257310008877 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 257310008878 oligomer interface [polypeptide binding]; other site 257310008879 metal binding site [ion binding]; metal-binding site 257310008880 metal binding site [ion binding]; metal-binding site 257310008881 putative Cl binding site [ion binding]; other site 257310008882 basic sphincter; other site 257310008883 hydrophobic gate; other site 257310008884 periplasmic entrance; other site 257310008885 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01544, DE CorA-like Mg2+ transporter protein, score 6.2e-46 257310008886 2 probable transmembrane helices predicted for BB1811 by TMHMM2.0 at aa 277-296 and 306-328 257310008887 Signal peptide predicted for BB1812 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.954 between residues 28 and 29; signal peptide 257310008888 Staphylococcal nuclease homologues; Region: SNc; smart00318 257310008889 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 257310008890 Catalytic site; other site 257310008891 HMMPfam hit to PF00565, DE Staphylococcal nuclease homologue, score 1.1e-20 257310008892 PS01123 Thermonuclease family signature 1. 257310008893 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008894 Signal peptide predicted for BB1813 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.771 between residues 38 and 39; signal peptide 257310008895 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 257310008896 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257310008897 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 9.9e-10 257310008898 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310008899 PS00215 Mitochondrial energy transfer proteins signature. 257310008900 1 probable transmembrane helix predicted for BB1813 by TMHMM2.0 at aa 705-727 257310008901 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310008902 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310008903 dimer interface [polypeptide binding]; other site 257310008904 conserved gate region; other site 257310008905 putative PBP binding loops; other site 257310008906 ABC-ATPase subunit interface; other site 257310008907 6 probable transmembrane helices predicted for BB1814 by TMHMM2.0 at aa 9-31, 116-138, 145-167, 182-204, 250-272 and 292-314 257310008908 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 9.4e-10 257310008909 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310008910 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 257310008911 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310008912 dimer interface [polypeptide binding]; other site 257310008913 conserved gate region; other site 257310008914 putative PBP binding loops; other site 257310008915 ABC-ATPase subunit interface; other site 257310008916 9 probable transmembrane helices predicted for BB1815 by TMHMM2.0 at aa 5-27, 40-62, 158-180, 208-230, 250-272, 285-307, 327-349, 382-404 and 435-457 257310008917 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 9.3e-08 257310008918 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310008919 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 257310008920 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310008921 Walker A/P-loop; other site 257310008922 ATP binding site [chemical binding]; other site 257310008923 Q-loop/lid; other site 257310008924 ABC transporter signature motif; other site 257310008925 Walker B; other site 257310008926 D-loop; other site 257310008927 H-loop/switch region; other site 257310008928 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310008929 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310008930 Walker A/P-loop; other site 257310008931 ATP binding site [chemical binding]; other site 257310008932 Q-loop/lid; other site 257310008933 ABC transporter signature motif; other site 257310008934 Walker B; other site 257310008935 D-loop; other site 257310008936 H-loop/switch region; other site 257310008937 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310008938 HMMPfam hit to PF00005, DE ABC transporter score 9.9e-55 257310008939 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008940 PS00211 ABC transporters family signature. 257310008941 HMMPfam hit to PF00005, DE ABC transporter score 2.2e-62 257310008942 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008943 PS00211 ABC transporters family signature. 257310008944 MarR family; Region: MarR_2; pfam12802 257310008945 HMMPfam hit to PF01047, DE MarR family, score 6.9e-05 257310008946 Signal peptide predicted for BB1818 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.278 between residues 28 and 29; signal peptide 257310008947 6 probable transmembrane helices predicted for BB1818 by TMHMM2.0 at aa 13-35, 395-417, 424-446, 456-478, 485-507 and 512-534 257310008948 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310008949 Signal peptide predicted for BB1819 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.773 between residues 27 and 28; signal peptide 257310008950 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 257310008951 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 257310008952 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 257310008953 Signal peptide predicted for BB1820 by SignalP 2.0 HMM (Signal peptide probabilty 0.903) with cleavage site probability 0.268 between residues 24 and 25; signal peptide 257310008954 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 257310008955 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 257310008956 7 probable transmembrane helices predicted for BB1820 by TMHMM2.0 at aa 5-27, 40-62, 77-99, 106-128, 143-165, 174-196 and 206-228 257310008957 HMMPfam hit to PF03707, DE Bacterial signalling protein N terminal repeat, score 1.1e-14 257310008958 HMMPfam hit to PF03707, DE Bacterial signalling protein N terminal repeat, score 1.5e-09 257310008959 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 257310008960 1 probable transmembrane helix predicted for BB1821 by TMHMM2.0 at aa 15-37 257310008961 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 257310008962 4 probable transmembrane helices predicted for BB1822 by TMHMM2.0 at aa 10-28, 35-54, 64-82 and 94-116 257310008963 Signal peptide predicted for BB1824 by SignalP 2.0 HMM (Signal peptide probabilty 0.813) with cleavage site probability 0.436 between residues 37 and 38; signal peptide 257310008964 Signal peptide predicted for BB1825 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.388 between residues 22 and 23; signal peptide 257310008965 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 257310008966 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 257310008967 HMMPfam hit to PF01354, DE Antifreeze-like domain, score 0.046 257310008968 Signal peptide predicted for BB1826 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.367 between residues 33 and 34; signal peptide 257310008969 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 257310008970 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 257310008971 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 257310008972 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310008973 HMMPfam hit to PF00263, DE Bacterial type II and III secretion system protein, score 4.4e-63 257310008974 AAA domain; Region: AAA_31; pfam13614 257310008975 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 257310008976 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 257310008977 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 257310008978 ATP binding site [chemical binding]; other site 257310008979 Walker A motif; other site 257310008980 hexamer interface [polypeptide binding]; other site 257310008981 Walker B motif; other site 257310008982 PS00237 G-protein coupled receptors signature. 257310008983 HMMPfam hit to PF00437, DE Type II/IV secretion system protein, score 2.4e-08 257310008984 PS00017 ATP/GTP-binding site motif A (P-loop). 257310008985 Signal peptide predicted for BB1829 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.680 between residues 19 and 20; signal peptide 257310008986 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 257310008987 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 257310008988 5 probable transmembrane helices predicted for BB1829 by TMHMM2.0 at aa 4-23, 84-101, 105-124, 250-269 and 284-302 257310008989 Signal peptide predicted for BB1830 by SignalP 2.0 HMM (Signal peptide probabilty 0.993) with cleavage site probability 0.553 between residues 36 and 37; signal peptide 257310008990 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 257310008991 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 257310008992 4 probable transmembrane helices predicted for BB1830 by TMHMM2.0 at aa 12-34, 113-132, 142-164 and 295-317 257310008993 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310008994 Signal peptide predicted for BB1831 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.449 between residues 27 and 28; signal peptide 257310008995 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 257310008996 TPR motif; other site 257310008997 binding surface 257310008998 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310008999 HMMPfam hit to PF00515, DE TPR Domain, score 0.00031 257310009000 HMMPfam hit to PF00515, DE TPR Domain, score 2.3 257310009001 Signal peptide predicted for BB1832 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.623 between residues 24 and 25; signal peptide 257310009002 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 257310009003 Signal peptide predicted for BB1833 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.461 between residues 33 and 34; signal peptide 257310009004 Predicted membrane protein [Function unknown]; Region: COG4655 257310009005 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310009006 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 257310009007 Walker A motif; other site 257310009008 ATP binding site [chemical binding]; other site 257310009009 Walker B motif; other site 257310009010 arginine finger; other site 257310009011 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 257310009012 HMMPfam hit to PF00158, DE Sigma-54 interaction domain, score 2.5e-92 257310009013 PS00675 Sigma-54 interaction domain ATP-binding region A signature. 257310009014 PS00676 Sigma-54 interaction domain ATP-binding region B signature. 257310009015 PS00688 Sigma-54 interaction domain C-terminal part signature. 257310009016 HMMPfam hit to PF02954, DE Bacterial regulatory protein, Fis family, score 3.4e-10 257310009017 Predicted helix-turn-helix motif with score 1157.000, SD 3.13 at aa 424-445, sequence WRRQDTAHHLGISRKVLWEKMR 257310009018 Signal peptide predicted for BB1835 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.458 between residues 30 and 31; signal peptide 257310009019 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 257310009020 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009021 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 257310009022 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 257310009023 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310009024 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 257310009025 DNA binding residues [nucleotide binding] 257310009026 HMMPfam hit to PF00776, , score 8.9e-11 257310009027 Predicted helix-turn-helix motif with score 1244.000, SD 3.42 at aa 167-188, sequence LSVEEVAQALDIPEATVRTRFF 257310009028 Signal peptide predicted for BB1838 by SignalP 2.0 HMM (Signal peptide probabilty 0.978) with cleavage site probability 0.817 between residues 42 and 43; signal peptide 257310009029 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 257310009030 dinuclear metal binding motif [ion binding]; other site 257310009031 Signal peptide predicted for BB1839 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.807 between residues 24 and 25; signal peptide 257310009032 Cytochrome c; Region: Cytochrom_C; cl11414 257310009033 HMMPfam hit to PF00034, DE Cytochrome c, score 5.6e-21 257310009034 PS00190 Cytochrome c family heme-binding site signature. 257310009035 elongation factor P; Validated; Region: PRK00529 257310009036 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 257310009037 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 257310009038 RNA binding site [nucleotide binding]; other site 257310009039 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 257310009040 RNA binding site [nucleotide binding]; other site 257310009041 HMMPfam hit to PF01132, DE Elongation factor P (EF-P), score 3.4e-61 257310009042 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 257310009043 PS00133 Zinc carboxypeptidases, zinc-binding region 2 signature. 257310009044 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 257310009045 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 257310009046 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 257310009047 putative active site [active] 257310009048 metal binding site [ion binding]; metal-binding site 257310009049 aconitate hydratase; Provisional; Region: acnA; PRK12881 257310009050 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 257310009051 substrate binding site [chemical binding]; other site 257310009052 ligand binding site [chemical binding]; other site 257310009053 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 257310009054 substrate binding site [chemical binding]; other site 257310009055 HMMPfam hit to PF00694, DE Aconitase C-terminal domain, score 5.5e-58 257310009056 HMMPfam hit to PF00330, DE Aconitase family (aconitate hydratase), score 3.3e-211 257310009057 PS01244 Aconitase family signature 2. 257310009058 PS00450 Aconitase family signature 1. 257310009059 Signal peptide predicted for BB1845 by SignalP 2.0 HMM (Signal peptide probabilty 0.972) with cleavage site probability 0.485 between residues 20 and 21; signal peptide 257310009060 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 257310009061 N-acetyl-D-glucosamine binding site [chemical binding]; other site 257310009062 catalytic residue [active] 257310009063 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009064 Signal peptide predicted for BB1846 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.517 between residues 24 and 25; signal peptide 257310009065 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 257310009066 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310009067 N-terminal plug; other site 257310009068 ligand-binding site [chemical binding]; other site 257310009069 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 9.8e-32 257310009070 This hit extended beyond the end of the feature by 1 aa and was clipped.; PS01156 TonB-dependent receptor proteins signature 2. 257310009071 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 257310009072 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310009073 motif II; other site 257310009074 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 1.4e-07 257310009075 Signal peptide predicted for BB1848 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 25 and 26; signal peptide 257310009076 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 257310009077 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 257310009078 ligand binding site [chemical binding]; other site 257310009079 HMMPfam hit to PF00691, DE OmpA family, score 2.8e-29 257310009080 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 257310009081 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 257310009082 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 257310009083 substrate binding site [chemical binding]; other site 257310009084 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 257310009085 substrate binding site [chemical binding]; other site 257310009086 ligand binding site [chemical binding]; other site 257310009087 HMMPfam hit to PF00330, DE Aconitase family (aconitate hydratase), score 2.4e-07 257310009088 PS00450 Aconitase family signature 1. 257310009089 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 257310009090 active site 257310009091 catalytic site [active] 257310009092 substrate binding site [chemical binding]; other site 257310009093 HMMPfam hit to PF00929, DE Exonuclease, score 8.7e-30 257310009094 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 257310009095 homodimer interface [polypeptide binding]; other site 257310009096 chemical substrate binding site [chemical binding]; other site 257310009097 oligomer interface [polypeptide binding]; other site 257310009098 metal binding site [ion binding]; metal-binding site 257310009099 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 257310009100 YciI-like protein; Reviewed; Region: PRK12866 257310009101 HMMPfam hit to PF03795, DE YCII-related domain, score 1.4e-05 257310009102 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 257310009103 EamA-like transporter family; Region: EamA; pfam00892 257310009104 10 probable transmembrane helices predicted for BB1855 by TMHMM2.0 at aa 5-27, 32-51, 58-80, 85-107, 114-136, 141-163, 170-192, 212-234, 241-260 and 270-287 257310009105 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 1.9e-15 257310009106 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 5.8e-14 257310009107 Signal peptide predicted for BB1856 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.507 between residues 19 and 20; signal peptide 257310009108 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009109 7 probable transmembrane helices predicted for BB1856 by TMHMM2.0 at aa 7-29, 39-61, 73-95, 100-122, 134-156, 196-218 and 231-253 257310009110 Signal peptide predicted for BB1857 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.929 between residues 22 and 23; signal peptide 257310009111 Signal peptide predicted for BB1859 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.985 between residues 36 and 37; signal peptide 257310009112 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 257310009113 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 257310009114 Mechanosensitive ion channel; Region: MS_channel; pfam00924 257310009115 HMMPfam hit to PF00924, DE Mechanosensitive ion channel, score 1.7e-39 257310009116 12 probable transmembrane helices predicted for BB1859 by TMHMM2.0 at aa 12-34, 208-230, 250-272, 287-309, 328-345, 360-382, 403-425, 440-462, 483-505, 530-552, 572-594 and 609-631 257310009117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310009118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310009119 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 257310009120 putative dimerization interface [polypeptide binding]; other site 257310009121 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.9e-37 257310009122 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009123 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.3e-25 257310009124 PS00044 Bacterial regulatory proteins, lysR family signature. 257310009125 Predicted helix-turn-helix motif with score 1978.000, SD 5.92 at aa 16-37, sequence ASFTQAARALFVTQSTVSKMIR 257310009126 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 257310009127 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 257310009128 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 257310009129 HMMPfam hit to PF02550, DE Acetyl-CoA hydrolase/transferase, score 1.1e-156 257310009130 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 257310009131 Sodium Bile acid symporter family; Region: SBF; pfam01758 257310009132 9 probable transmembrane helices predicted for BB1862 by TMHMM2.0 at aa 35-57, 63-85, 98-120, 126-148, 153-175, 190-212, 219-241, 251-273 and 294-316 257310009133 HMMPfam hit to PF01758, DE Sodium Bile acid symporter family, score 1.9e-55 257310009134 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310009135 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310009136 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310009137 dimerization interface [polypeptide binding]; other site 257310009138 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5e-29 257310009139 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.5e-19 257310009140 PS00044 Bacterial regulatory proteins, lysR family signature. 257310009141 Predicted helix-turn-helix motif with score 1723.000, SD 5.06 at aa 23-44, sequence QNLRAAALQLHLTHSAVSQQIR 257310009142 Signal peptide predicted for BB1864 by SignalP 2.0 HMM (Signal peptide probabilty 0.813) with cleavage site probability 0.703 between residues 39 and 40; signal peptide 257310009143 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 257310009144 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310009145 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310009146 HMMPfam hit to PF03212, DE Pertactin, score 1.2e-68 257310009147 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 1e-76 257310009148 Maf-like protein; Region: Maf; pfam02545 257310009149 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 257310009150 active site 257310009151 dimer interface [polypeptide binding]; other site 257310009152 HMMPfam hit to PF02545, DE Maf-like protein, score 5e-50 257310009153 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 257310009154 HMMPfam hit to PF02590, DE Uncharacterized ACR, COG1576, score 5.9e-44 257310009155 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 257310009156 HMMPfam hit to PF02410, DE Domain of unknown function DUF143, score 4.7e-33 257310009157 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 257310009158 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 257310009159 active site 257310009160 (T/H)XGH motif; other site 257310009161 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 257310009162 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 257310009163 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01218, DE Coproporphyrinogen III oxidase, score 2.1e-178 257310009164 PS01021 Coproporphyrinogen III oxidase signature. 257310009165 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 257310009166 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 257310009167 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 257310009168 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 257310009169 HMMPfam hit to PF02843, DE Phosphoribosylglycinamide synthetase, C domain, score 1.8e-44 257310009170 HMMPfam hit to PF01071, DE Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain, score 2.3e-78 257310009171 HMMPfam hit to PF02842, DE Phosphoribosylglycinamide synthetase, B domain, score 4.7e-42 257310009172 HMMPfam hit to PF02844, DE Phosphoribosylglycinamide synthetase, N domain, score 7.5e-55 257310009173 hypothetical protein; Validated; Region: PRK00110 257310009174 HMMPfam hit to PF01709, DE Domain of unknown function DUF28, score 1.3e-118 257310009175 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 257310009176 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 257310009177 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009178 aminotransferase; Provisional; Region: PRK06105 257310009179 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310009180 inhibitor-cofactor binding pocket; inhibition site 257310009181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310009182 catalytic residue [active] 257310009183 HMMPfam hit to PF00202, DE Aminotransferase class-III, score 3.9e-100 257310009184 PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site. 257310009185 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 257310009186 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 257310009187 putative ligand binding site [chemical binding]; other site 257310009188 NAD binding site [chemical binding]; other site 257310009189 dimerization interface [polypeptide binding]; other site 257310009190 catalytic site [active] 257310009191 HMMPfam hit to PF02826, DE D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain, score 1.6e-15 257310009192 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310009193 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 257310009194 NAD(P) binding site [chemical binding]; other site 257310009195 catalytic residues [active] 257310009196 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 1.1e-206 257310009197 PS00070 Aldehyde dehydrogenases cysteine active site. 257310009198 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310009199 EamA-like transporter family; Region: EamA; pfam00892 257310009200 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310009201 EamA-like transporter family; Region: EamA; pfam00892 257310009202 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 3.4e-06 257310009203 10 probable transmembrane helices predicted for BB1876 by TMHMM2.0 at aa 13-30, 45-67, 79-101, 106-125, 132-151, 155-174, 186-208, 218-238, 245-267 and 271-288 257310009204 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 1.4e-11 257310009205 allantoate amidohydrolase; Reviewed; Region: PRK12893 257310009206 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 257310009207 active site 257310009208 metal binding site [ion binding]; metal-binding site 257310009209 dimer interface [polypeptide binding]; other site 257310009210 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 3.7e-20 257310009211 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009212 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 257310009213 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 257310009214 active site 257310009215 Zn binding site [ion binding]; other site 257310009216 HMMPfam hit to PF00850, DE Histone deacetylase family, score 2e-56 257310009217 Cupin domain; Region: Cupin_2; cl17218 257310009218 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 257310009219 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310009220 inhibitor-cofactor binding pocket; inhibition site 257310009221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310009222 catalytic residue [active] 257310009223 HMMPfam hit to PF00202, DE Aminotransferase class-III, score 4.4e-162 257310009224 PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site. 257310009225 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 257310009226 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310009227 Walker A/P-loop; other site 257310009228 ATP binding site [chemical binding]; other site 257310009229 Q-loop/lid; other site 257310009230 ABC transporter signature motif; other site 257310009231 Walker B; other site 257310009232 D-loop; other site 257310009233 H-loop/switch region; other site 257310009234 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 257310009235 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310009236 Walker A/P-loop; other site 257310009237 ATP binding site [chemical binding]; other site 257310009238 Q-loop/lid; other site 257310009239 ABC transporter signature motif; other site 257310009240 Walker B; other site 257310009241 D-loop; other site 257310009242 H-loop/switch region; other site 257310009243 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310009244 HMMPfam hit to PF00005, DE ABC transporter score 6.7e-58 257310009245 PS00211 ABC transporters family signature. 257310009246 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009247 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009248 HMMPfam hit to PF00005, DE ABC transporter score 5.1e-62 257310009249 PS00211 ABC transporters family signature. 257310009250 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009251 Signal peptide predicted for BB1882 by SignalP 2.0 HMM (Signal peptide probabilty 0.911) with cleavage site probability 0.601 between residues 36 and 37; signal peptide 257310009252 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 257310009253 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310009254 putative PBP binding loops; other site 257310009255 dimer interface [polypeptide binding]; other site 257310009256 ABC-ATPase subunit interface; other site 257310009257 5 probable transmembrane helices predicted for BB1882 by TMHMM2.0 at aa 13-35, 81-103, 124-146, 198-220 and 241-263 257310009258 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.00067 257310009259 Signal peptide predicted for BB1883 by SignalP 2.0 HMM (Signal peptide probabilty 0.970) with cleavage site probability 0.515 between residues 44 and 45; signal peptide 257310009260 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310009261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310009262 dimer interface [polypeptide binding]; other site 257310009263 conserved gate region; other site 257310009264 putative PBP binding loops; other site 257310009265 ABC-ATPase subunit interface; other site 257310009266 6 probable transmembrane helices predicted for BB1883 by TMHMM2.0 at aa 13-35, 105-127, 148-170, 194-216, 252-274 and 294-316 257310009267 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4.4e-11 257310009268 Signal peptide predicted for BB1884 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 27 and 28; signal peptide 257310009269 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 257310009270 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 257310009271 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 6.2e-70 257310009272 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 257310009273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310009274 DNA-binding site [nucleotide binding]; DNA binding site 257310009275 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310009276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310009277 homodimer interface [polypeptide binding]; other site 257310009278 catalytic residue [active] 257310009279 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 3.2e-14 257310009280 Predicted helix-turn-helix motif with score 1063.000, SD 2.81 at aa 433-454, sequence LGISIAARTLGLHARPLSRYYA 257310009281 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 257310009282 tartrate dehydrogenase; Region: TTC; TIGR02089 257310009283 HMMPfam hit to PF00180, DE Isocitrate/isopropylmalate dehydrogenase, score 3e-88 257310009284 PS00470 Isocitrate and isopropylmalate dehydrogenases signature. 257310009285 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 257310009286 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310009287 putative substrate translocation pore; other site 257310009288 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310009289 13 probable transmembrane helices predicted for BB1887 by TMHMM2.0 at aa 60-82, 89-108, 123-142, 149-171, 175-197, 209-228, 238-260, 280-302, 312-334, 346-364, 374-396, 408-430 and 485-507 257310009290 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0065 257310009291 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 257310009292 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257310009293 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310009294 HMMPfam hit to PF00529, DE hemolysin D, score 6.9e-61 257310009295 1 probable transmembrane helix predicted for BB1888 by TMHMM2.0 at aa 22-44 257310009296 Signal peptide predicted for BB1889 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.627 between residues 21 and 22; signal peptide 257310009297 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 257310009298 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 2.9e-27 257310009299 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 1.6e-32 257310009300 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009301 MarR family; Region: MarR_2; cl17246 257310009302 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 257310009303 HMMPfam hit to PF01047, DE MarR family, score 1.7e-24 257310009304 EamA-like transporter family; Region: EamA; pfam00892 257310009305 10 probable transmembrane helices predicted for BB1891 by TMHMM2.0 at aa 7-24, 28-50, 57-79, 92-114, 121-143, 148-167, 180-202, 207-229, 236-256 and 261-280 257310009306 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 6.4e-20 257310009307 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 0.02 257310009308 Signal peptide predicted for BB1892 by SignalP 2.0 HMM (Signal peptide probabilty 0.942) with cleavage site probability 0.426 between residues 36 and 37; signal peptide 257310009309 EamA-like transporter family; Region: EamA; pfam00892 257310009310 10 probable transmembrane helices predicted for BB1892 by TMHMM2.0 at aa 13-35, 50-68, 89-108, 118-135, 142-159, 169-191, 204-223, 238-260, 267-285 and 289-308 257310009311 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 6.3e-11 257310009312 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310009313 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 1.9e-15 257310009314 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 257310009315 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 257310009316 NADP binding site [chemical binding]; other site 257310009317 dimer interface [polypeptide binding]; other site 257310009318 HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 1.1e-80 257310009319 heat shock protein HtpX; Provisional; Region: PRK05457 257310009320 Signal peptide predicted for BB1894 by SignalP 2.0 HMM (Signal peptide probabilty 0.977) with cleavage site probability 0.707 between residues 19 and 20; signal peptide 257310009321 HMMPfam hit to PF01435, DE Peptidase family M48, score 2.9e-47 257310009322 4 probable transmembrane helices predicted for BB1894 by TMHMM2.0 at aa 5-27, 37-59, 159-181 and 196-218 257310009323 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310009324 Signal peptide predicted for BB1895 by SignalP 2.0 HMM (Signal peptide probabilty 0.983) with cleavage site probability 0.543 between residues 23 and 24; signal peptide 257310009325 10 probable transmembrane helices predicted for BB1895 by TMHMM2.0 at aa 5-23, 33-52, 65-87, 91-108, 115-132, 142-161, 174-196, 200-219, 226-248 and 258-275 257310009326 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 0.023 257310009327 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 0.0088 257310009328 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 257310009329 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 257310009330 active site residue [active] 257310009331 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 257310009332 active site residue [active] 257310009333 HMMPfam hit to PF00581, DE Rhodanese-like domain, score 1.4e-15 257310009334 HMMPfam hit to PF00581, DE Rhodanese-like domain, score 9.6e-10 257310009335 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 257310009336 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 257310009337 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310009338 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310009339 dimerization interface [polypeptide binding]; other site 257310009340 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.4e-35 257310009341 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.8e-12 257310009342 PS00044 Bacterial regulatory proteins, lysR family signature. 257310009343 Predicted helix-turn-helix motif with score 1708.000, SD 5.00 at aa 5-26, sequence GTVTKAAAQLGVSQPTVTGQLR 257310009344 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 257310009345 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310009346 Walker A/P-loop; other site 257310009347 ATP binding site [chemical binding]; other site 257310009348 Q-loop/lid; other site 257310009349 ABC transporter signature motif; other site 257310009350 Walker B; other site 257310009351 D-loop; other site 257310009352 H-loop/switch region; other site 257310009353 HMMPfam hit to PF00005, DE ABC transporter score 1.1e-63 257310009354 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009355 PS00211 ABC transporters family signature. 257310009356 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 257310009357 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310009358 putative PBP binding loops; other site 257310009359 dimer interface [polypeptide binding]; other site 257310009360 ABC-ATPase subunit interface; other site 257310009361 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310009362 dimer interface [polypeptide binding]; other site 257310009363 conserved gate region; other site 257310009364 putative PBP binding loops; other site 257310009365 ABC-ATPase subunit interface; other site 257310009366 13 probable transmembrane helices predicted for BB1900 by TMHMM2.0 at aa 15-37, 44-66, 70-92, 105-127, 147-169, 199-218, 246-263, 292-314, 348-370, 390-412, 417-436, 487-509 and 524-546 257310009367 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 3.4e-05 257310009368 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.052 257310009369 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 257310009370 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310009371 motif II; other site 257310009372 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 3.5e-25 257310009373 Signal peptide predicted for BB1902 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.625 between residues 22 and 23; signal peptide 257310009374 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 257310009375 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 257310009376 1 probable transmembrane helix predicted for BB1902 by TMHMM2.0 at aa 7-29 257310009377 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 1.9e-10 257310009378 Signal peptide predicted for BB1903 by SignalP 2.0 HMM (Signal peptide probabilty 0.947) with cleavage site probability 0.825 between residues 21 and 22; signal peptide 257310009379 hydroxyglutarate oxidase; Provisional; Region: PRK11728 257310009380 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 257310009381 RNA polymerase sigma factor; Provisional; Region: PRK12529 257310009382 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310009383 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 257310009384 DNA binding residues [nucleotide binding] 257310009385 Predicted helix-turn-helix motif with score 1562.000, SD 4.51 at aa 143-164, sequence MKQRDIAHAMDIAIPTVKRYMR 257310009386 Signal peptide predicted for BB1905 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.959 between residues 35 and 36; signal peptide 257310009387 Secretin and TonB N terminus short domain; Region: STN; smart00965 257310009388 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 257310009389 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 257310009390 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 257310009391 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 0.0045 257310009392 This hit extended beyond the end of the feature by 1 aa and was clipped.; PS01156 TonB-dependent receptor proteins signature 2. 257310009393 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 257310009394 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 257310009395 [2Fe-2S] cluster binding site [ion binding]; other site 257310009396 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 257310009397 alpha subunit interface [polypeptide binding]; other site 257310009398 active site 257310009399 substrate binding site [chemical binding]; other site 257310009400 Fe binding site [ion binding]; other site 257310009401 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 4.5e-15 257310009402 PS00242 Integrins alpha chain signature. 257310009403 Acyltransferase family; Region: Acyl_transf_3; pfam01757 257310009404 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 257310009405 10 probable transmembrane helices predicted for BB1907 by TMHMM2.0 at aa 13-32, 52-69, 89-106, 130-152, 159-177, 187-206, 215-232, 242-264, 271-289 and 304-326 257310009406 HMMPfam hit to PF01757, DE Acyltransferase family, score 0.018 257310009407 Signal peptide predicted for BB1908 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.947 between residues 23 and 24; signal peptide 257310009408 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310009409 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.9e-89 257310009410 Predicted helix-turn-helix motif with score 1020.000, SD 2.66 at aa 293-314, sequence GTAQELTTQMKNEQPVVSQLIK 257310009411 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310009412 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310009413 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310009414 Predicted helix-turn-helix motif with score 1327.000, SD 3.71 at aa 76-97, sequence LGNLDLARLTGLPKPTISRITY 257310009415 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 5e-12 257310009416 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 257310009417 HMMPfam hit to PF02609, DE Exonuclease VII small subunit, score 3.4e-23 257310009418 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 257310009419 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 257310009420 substrate binding pocket [chemical binding]; other site 257310009421 chain length determination region; other site 257310009422 substrate-Mg2+ binding site; other site 257310009423 catalytic residues [active] 257310009424 aspartate-rich region 1; other site 257310009425 active site lid residues [active] 257310009426 aspartate-rich region 2; other site 257310009427 HMMPfam hit to PF00348, DE Polyprenyl synthetase, score 1.1e-87 257310009428 PS00723 Polyprenyl synthetases signature 1. 257310009429 PS00444 Polyprenyl synthetases signature 2. 257310009430 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 257310009431 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 257310009432 TPP-binding site; other site 257310009433 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 257310009434 PYR/PP interface [polypeptide binding]; other site 257310009435 dimer interface [polypeptide binding]; other site 257310009436 TPP binding site [chemical binding]; other site 257310009437 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 257310009438 PS00801 Transketolase signature 1. 257310009439 HMMPfam hit to PF02779, DE Transketolase, pyridine binding domain, score 5e-59 257310009440 HMMPfam hit to PF02780, DE Transketolase, C-terminal domain, score 5.8e-40 257310009441 putative GTP cyclohydrolase; Provisional; Region: PRK13674 257310009442 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02649, DE Uncharacterized ACR, COG1469, score 4.4e-34 257310009443 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 257310009444 Signal peptide predicted for BB1914 by SignalP 2.0 HMM (Signal peptide probabilty 0.910) with cleavage site probability 0.654 between residues 21 and 22; signal peptide 257310009445 HMMPfam hit to PF01250, DE Ribosomal protein S6, score 1.8e-39 257310009446 primosomal replication protein N; Reviewed; Region: PRK00036 257310009447 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 257310009448 HMMPfam hit to PF01084, DE Ribosomal protein S18, score 5.1e-26 257310009449 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 257310009450 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 257310009451 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 257310009452 HMMPfam hit to PF01281, DE Ribosomal protein L9, N-terminal domain, score 9.5e-25 257310009453 PS00651 Ribosomal protein L9 signature. 257310009454 HMMPfam hit to PF03948, DE Ribosomal protein L9, C-terminal domain, score 3.8e-21 257310009455 serine/threonine protein kinase; Provisional; Region: PRK14879 257310009456 replicative DNA helicase; Provisional; Region: PRK07004 257310009457 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 257310009458 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 257310009459 Walker A motif; other site 257310009460 ATP binding site [chemical binding]; other site 257310009461 Walker B motif; other site 257310009462 DNA binding loops [nucleotide binding] 257310009463 HMMPfam hit to PF00772, DE DnaB-like helicase N terminal domain, score 1e-46 257310009464 HMMPfam hit to PF03796, DE DnaB-like helicase C terminal domain, score 1.5e-121 257310009465 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009466 Predicted helix-turn-helix motif with score 1001.000, SD 2.60 at aa 354-375, sequence RSLKGLAKELNCPLIALSQLNR 257310009467 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 257310009468 Signal peptide predicted for BB1920 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.725 between residues 30 and 31; signal peptide 257310009469 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 257310009470 8 probable transmembrane helices predicted for BB1920 by TMHMM2.0 at aa 12-29, 34-53, 66-88, 103-125, 138-160, 170-192, 232-254 and 280-302 257310009471 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 257310009472 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 257310009473 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 257310009474 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 257310009475 putative active site [active] 257310009476 PhoH-like protein; Region: PhoH; pfam02562 257310009477 HMMPfam hit to PF02562, DE PhoH-like protein, score 3e-11 257310009478 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009479 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 257310009480 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 257310009481 catalytic triad [active] 257310009482 HMMPfam hit to PF00578, DE AhpC/TSA family, score 3.2e-27 257310009483 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 257310009484 aminotransferase; Validated; Region: PRK08175 257310009485 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310009486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310009487 homodimer interface [polypeptide binding]; other site 257310009488 catalytic residue [active] 257310009489 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 4.6e-34 257310009490 homoserine dehydrogenase; Provisional; Region: PRK06349 257310009491 Signal peptide predicted for BB1926 by SignalP 2.0 HMM (Signal peptide probabilty 0.951) with cleavage site probability 0.388 between residues 23 and 24; signal peptide 257310009492 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 257310009493 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 257310009494 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 257310009495 HMMPfam hit to PF03447, DE Homoserine dehydrogenase, NAD binding domain, score 2.7e-48 257310009496 PS00318 Hydroxymethylglutaryl-coenzyme A reductases signature 2. 257310009497 HMMPfam hit to PF00742, DE Homoserine dehydrogenase, score 3.6e-98 257310009498 PS01042 Homoserine dehydrogenase signature. 257310009499 HMMPfam hit to PF01842, DE ACT domain, score 1.2e-13 257310009500 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 257310009501 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 257310009502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310009503 catalytic residue [active] 257310009504 PS00030 Eukaryotic RNA-binding region RNP-1 signature. 257310009505 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 4e-11 257310009506 Signal peptide predicted for BB1928 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.665 between residues 27 and 28; signal peptide 257310009507 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 257310009508 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009509 fructose-1,6-bisphosphatase family protein; Region: PLN02628 257310009510 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 257310009511 AMP binding site [chemical binding]; other site 257310009512 metal binding site [ion binding]; metal-binding site 257310009513 active site 257310009514 HMMPfam hit to PF00316, DE Fructose-1-6-bisphosphatase, score 3.6e-168 257310009515 aminopeptidase N; Provisional; Region: pepN; PRK14015 257310009516 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 257310009517 active site 257310009518 Zn binding site [ion binding]; other site 257310009519 HMMPfam hit to PF01433, DE Peptidase family M1, score 1.6e-56 257310009520 PS00142 Neutral zinc metallopeptidases, zinc-binding region signature. 257310009521 PS01039 Bacterial extracellular substrate-binding proteins, family 3 signature. 257310009522 Signal peptide predicted for BB1931 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.893 between residues 36 and 37; signal peptide 257310009523 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 257310009524 1 probable transmembrane helix predicted for BB1931 by TMHMM2.0 at aa 13-35 257310009525 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009526 H-NS histone family; Region: Histone_HNS; pfam00816 257310009527 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 257310009528 nitrilase; Region: PLN02798 257310009529 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 257310009530 putative active site [active] 257310009531 catalytic triad [active] 257310009532 dimer interface [polypeptide binding]; other site 257310009533 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00795, DE Carbon-nitrogen hydrolase, score 1.2e-68 257310009534 protease TldD; Provisional; Region: tldD; PRK10735 257310009535 HMMPfam hit to PF01523, DE modulator of DNA gyrase, score 2.2e-83 257310009536 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 257310009537 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 257310009538 HMMPfam hit to PF00793, DE DAHP synthetase I family, score 2.1e-154 257310009539 haemagglutination activity domain; Region: Haemagg_act; pfam05860 257310009540 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 257310009541 Peptidase C80 family; Region: Peptidase_C80; pfam11713 257310009542 Peptidase C80 family; Region: Peptidase_C80; pfam11713 257310009543 Peptidase C80 family; Region: Peptidase_C80; pfam11713 257310009544 Peptidase C80 family; Region: Peptidase_C80; pfam11713 257310009545 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310009546 PS00079 Multicopper oxidases signature 1. 257310009547 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310009548 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 257310009549 FAD binding domain; Region: FAD_binding_4; pfam01565 257310009550 HMMPfam hit to PF01565, DE FAD binding domain, score 7.1e-68 257310009551 HMMPfam hit to PF02913, DE FAD linked oxidases, C-terminal domain, score 2.2e-87 257310009552 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 257310009553 FAD binding domain; Region: FAD_binding_4; pfam01565 257310009554 HMMPfam hit to PF01565, DE FAD binding domain, score 5.2e-59 257310009555 HMMPfam hit to PF02913, DE FAD linked oxidases, C-terminal domain, score 1.2e-69 257310009556 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 257310009557 FAD binding domain; Region: FAD_binding_4; pfam01565 257310009558 HMMPfam hit to PF01565, DE FAD binding domain, score 3.3e-18 257310009559 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 257310009560 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 257310009561 Cysteine-rich domain; Region: CCG; pfam02754 257310009562 Cysteine-rich domain; Region: CCG; pfam02754 257310009563 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.034 257310009564 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310009565 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.016 257310009566 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310009567 HMMPfam hit to PF02754, DE Domain of unknown function (DUF224), score 0.00051 257310009568 HMMPfam hit to PF02754, DE Domain of unknown function (DUF224), score 2.4e-09 257310009569 Signal peptide predicted for BB1941 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.929 between residues 26 and 27; signal peptide 257310009570 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 257310009571 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310009572 PS00215 Mitochondrial energy transfer proteins signature. 257310009573 outer membrane receptor FepA; Provisional; Region: PRK13528 257310009574 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310009575 N-terminal plug; other site 257310009576 ligand-binding site [chemical binding]; other site 257310009577 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 3e-30 257310009578 This hit extended beyond the end of the feature by 1 aa and was clipped.; PS01156 TonB-dependent receptor proteins signature 2. 257310009579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310009580 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257310009581 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 3.5e-05 257310009582 Predicted helix-turn-helix motif with score 2095.000, SD 6.32 at aa 251-272, sequence WSLEEIARHACLSVNTLQRHFR 257310009583 PS00041 Bacterial regulatory proteins, araC family signature. 257310009584 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 1.1e-06 257310009585 Signal peptide predicted for BB1944 by SignalP 2.0 HMM (Signal peptide probabilty 0.613) with cleavage site probability 0.332 between residues 26 and 27; signal peptide 257310009586 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 257310009587 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 257310009588 HMMPfam hit to PF02233, DE NAD(P) transhydrogenase beta subunit, score 1.3e-257 257310009589 8 probable transmembrane helices predicted for BB1944 by TMHMM2.0 at aa 4-26, 33-55, 60-82, 95-117, 137-159, 179-198, 203-225 and 246-268 257310009590 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009591 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 257310009592 3 probable transmembrane helices predicted for BB1945 by TMHMM2.0 at aa 4-26, 38-57 and 62-84 257310009593 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 257310009594 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 257310009595 ligand binding site [chemical binding]; other site 257310009596 homodimer interface [polypeptide binding]; other site 257310009597 NAD(P) binding site [chemical binding]; other site 257310009598 trimer interface B [polypeptide binding]; other site 257310009599 trimer interface A [polypeptide binding]; other site 257310009600 HMMPfam hit to PF01262, DE Alanine dehydrogenase/pyridine nucleotide transhydrogenase, score 5.7e-28 257310009601 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 257310009602 Signal peptide predicted for BB1948 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 27 and 28; signal peptide 257310009603 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310009604 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-107 257310009605 1 probable transmembrane helix predicted for BB1948 by TMHMM2.0 at aa 5-27 257310009606 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310009607 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310009608 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310009609 dimerization interface [polypeptide binding]; other site 257310009610 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1e-24 257310009611 Predicted helix-turn-helix motif with score 1718.000, SD 5.04 at aa 21-42, sequence NSFTRAAQELCVTQGAVSKQVK 257310009612 PS00044 Bacterial regulatory proteins, lysR family signature. 257310009613 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.2e-34 257310009614 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 257310009615 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 257310009616 HMMPfam hit to PF03054, DE tRNA methyl transferase, score 5.7e-181 257310009617 PS00070 Aldehyde dehydrogenases cysteine active site. 257310009618 Signal peptide predicted for BB1951 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.683 between residues 19 and 20; signal peptide 257310009619 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 257310009620 8 probable transmembrane helices predicted for BB1951 by TMHMM2.0 at aa 7-29, 49-68, 80-102, 107-126, 146-168, 178-200, 213-235 and 250-267 257310009621 HMMPfam hit to PF01925, DE Domain of unknown function DUF81, score 4.1e-14 257310009622 putative glutathione S-transferase; Provisional; Region: PRK10357 257310009623 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 257310009624 putative C-terminal domain interface [polypeptide binding]; other site 257310009625 putative GSH binding site (G-site) [chemical binding]; other site 257310009626 putative dimer interface [polypeptide binding]; other site 257310009627 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 257310009628 dimer interface [polypeptide binding]; other site 257310009629 N-terminal domain interface [polypeptide binding]; other site 257310009630 putative substrate binding pocket (H-site) [chemical binding]; other site 257310009631 HMMPfam hit to PF00043, DE Glutathione S-transferase, C-terminal domain, score 3.8e-07 257310009632 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 6.1e-10 257310009633 adenylosuccinate lyase; Provisional; Region: PRK09285 257310009634 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 257310009635 tetramer interface [polypeptide binding]; other site 257310009636 active site 257310009637 HMMPfam hit to PF00206, DE Lyase, score 2.1e-78 257310009638 PS00163 Fumarate lyases signature. 257310009639 Signal peptide predicted for BB1954 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.905 between residues 25 and 26; signal peptide 257310009640 Cytochrome C' Region: Cytochrom_C_2; pfam01322 257310009641 HMMPfam hit to PF01322, DE Cytochrome C', score 2.9e-56 257310009642 PS00238 Visual pigments (opsins) retinal binding site. 257310009643 PS00190 Cytochrome c family heme-binding site signature. 257310009644 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 257310009645 5 probable transmembrane helices predicted for BB1955 by TMHMM2.0 at aa 17-39, 43-65, 97-119, 150-169 and 200-222 257310009646 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 257310009647 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009648 Signal peptide predicted for BB1958 by SignalP 2.0 HMM (Signal peptide probabilty 0.938) with cleavage site probability 0.633 between residues 24 and 25; signal peptide 257310009649 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 257310009650 Domain of unknown function DUF20; Region: UPF0118; pfam01594 257310009651 8 probable transmembrane helices predicted for BB1958 by TMHMM2.0 at aa 7-26, 30-48, 61-83, 160-177, 213-235, 239-261, 268-290 and 310-332 257310009652 HMMPfam hit to PF01594, DE Domain of unknown function DUF20, score 5.1e-48 257310009653 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 257310009654 Isochorismatase family; Region: Isochorismatase; pfam00857 257310009655 catalytic triad [active] 257310009656 metal binding site [ion binding]; metal-binding site 257310009657 conserved cis-peptide bond; other site 257310009658 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 257310009659 heme-binding site [chemical binding]; other site 257310009660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310009661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310009662 metal binding site [ion binding]; metal-binding site 257310009663 active site 257310009664 I-site; other site 257310009665 HMMPfam hit to PF00990, DE GGDEF domain, score 3.1e-54 257310009666 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 257310009667 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257310009668 Zn2+ binding site [ion binding]; other site 257310009669 Mg2+ binding site [ion binding]; other site 257310009670 HMMPfam hit to PF01966, DE HD domain, score 5.3e-08 257310009671 Signal peptide predicted for BB1962 by SignalP 2.0 HMM (Signal peptide probabilty 0.810) with cleavage site probability 0.657 between residues 20 and 21; signal peptide 257310009672 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 257310009673 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 257310009674 HMMPfam hit to PF03781, DE Domain of unknown function (DUF323), score 6e-28 257310009675 Signal peptide predicted for BB1967 by SignalP 2.0 HMM (Signal peptide probabilty 0.826) with cleavage site probability 0.787 between residues 20 and 21; signal peptide 257310009676 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 257310009677 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 257310009678 2 probable transmembrane helices predicted for BB1968 by TMHMM2.0 at aa 66-88 and 93-115 257310009679 Signal peptide predicted for BB1969 by SignalP 2.0 HMM (Signal peptide probabilty 0.885) with cleavage site probability 0.558 between residues 27 and 28; signal peptide 257310009680 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 257310009681 PLD-like domain; Region: PLDc_2; pfam13091 257310009682 putative active site [active] 257310009683 catalytic site [active] 257310009684 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 257310009685 PLD-like domain; Region: PLDc_2; pfam13091 257310009686 putative active site [active] 257310009687 catalytic site [active] 257310009688 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009689 HMMPfam hit to PF00614, DE Phospholipase D. Active site motif, score 0.00039 257310009690 HMMPfam hit to PF00614, DE Phospholipase D. Active site motif, score 0.001 257310009691 Signal peptide predicted for BB1970 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.696 between residues 28 and 29; signal peptide 257310009692 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 257310009693 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 257310009694 active site 257310009695 FMN binding site [chemical binding]; other site 257310009696 substrate binding site [chemical binding]; other site 257310009697 3Fe-4S cluster binding site [ion binding]; other site 257310009698 HMMPfam hit to PF01645, DE Conserved region in glutamate synthase, score 2.4e-77 257310009699 2 probable transmembrane helices predicted for BB1970 by TMHMM2.0 at aa 4-26 and 31-53 257310009700 Sulphur transport; Region: Sulf_transp; pfam04143 257310009701 10 probable transmembrane helices predicted for BB1971 by TMHMM2.0 at aa 51-70, 75-94, 115-137, 152-174, 181-203, 218-240, 261-283, 336-358, 365-384 and 394-416 257310009702 Predicted permeases [General function prediction only]; Region: COG0679 257310009703 10 probable transmembrane helices predicted for BB1972 by TMHMM2.0 at aa 5-27, 34-53, 63-85, 97-119, 124-146, 166-188, 198-217, 229-251, 255-277 and 290-309 257310009704 HMMPfam hit to PF03547, DE Auxin Efflux Carrier, score 3.4e-12 257310009705 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 257310009706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310009707 Coenzyme A binding pocket [chemical binding]; other site 257310009708 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 1.7e-12 257310009709 DTW domain; Region: DTW; cl01221 257310009710 HMMPfam hit to PF03942, DE DTW domain, score 1.1e-54 257310009711 ribonuclease R; Region: RNase_R; TIGR02063 257310009712 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 257310009713 RNA binding site [nucleotide binding]; other site 257310009714 RNB domain; Region: RNB; pfam00773 257310009715 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 257310009716 RNA binding site [nucleotide binding]; other site 257310009717 Predicted helix-turn-helix motif with score 979.000, SD 2.52 at aa 26-47, sequence LSPAELAERMGVERPATLVGFE 257310009718 HMMPfam hit to PF00773, DE RNB-like protein, score 1.2e-118 257310009719 PS01175 Ribonuclease II family signature. 257310009720 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 7.1e-10 257310009721 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 257310009722 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 257310009723 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 257310009724 HMMPfam hit to PF00588, DE SpoU rRNA Methylase family, score 7.7e-55 257310009725 hypothetical protein; Provisional; Region: PRK05939 257310009726 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 257310009727 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310009728 catalytic residue [active] 257310009729 HMMPfam hit to PF01053, DE Cys/Met metabolism PLP-dependent enzyme, score 5.8e-105 257310009730 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 257310009731 HMMPfam hit to PF03171, DE 2OG-Fe(II) oxygenase superfamily, score 2.3e-11 257310009732 PS00041 Bacterial regulatory proteins, araC family signature. 257310009733 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 257310009734 IHF dimer interface [polypeptide binding]; other site 257310009735 IHF - DNA interface [nucleotide binding]; other site 257310009736 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00216, DE Bacterial DNA-binding protein, score 4.1e-47 257310009737 PS00045 Bacterial histone-like DNA-binding proteins signature. 257310009738 Signal peptide predicted for BB1980 by SignalP 2.0 HMM (Signal peptide probabilty 0.918) with cleavage site probability 0.882 between residues 31 and 32; signal peptide 257310009739 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 257310009740 1 probable transmembrane helix predicted for BB1980 by TMHMM2.0 at aa 15-37 257310009741 HMMPfam hit to PF03544, DE Gram-negative bacterial tonB protein, score 1.7e-11 257310009742 Signal peptide predicted for BB1981 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.691 between residues 20 and 21; signal peptide 257310009743 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 257310009744 3 probable transmembrane helices predicted for BB1981 by TMHMM2.0 at aa 96-118, 220-242 and 257-279 257310009745 HMMPfam hit to PF01618, DE MotA/TolQ/ExbB proton channel family, score 6.7e-63 257310009746 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 257310009747 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 257310009748 HMMPfam hit to PF02472, DE Biopolymer transport protein ExbD/TolR, score 2.2e-19 257310009749 1 probable transmembrane helix predicted for BB1982 by TMHMM2.0 at aa 20-42 257310009750 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310009751 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310009752 active site 257310009753 phosphorylation site [posttranslational modification] 257310009754 intermolecular recognition site; other site 257310009755 dimerization interface [polypeptide binding]; other site 257310009756 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310009757 DNA binding site [nucleotide binding] 257310009758 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.1e-40 257310009759 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 4.5e-17 257310009760 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310009761 dimer interface [polypeptide binding]; other site 257310009762 phosphorylation site [posttranslational modification] 257310009763 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310009764 ATP binding site [chemical binding]; other site 257310009765 Mg2+ binding site [ion binding]; other site 257310009766 G-X-G motif; other site 257310009767 2 probable transmembrane helices predicted for BB1984 by TMHMM2.0 at aa 27-49 and 64-86 257310009768 HMMPfam hit to PF00672, DE HAMP domain, score 0.0011 257310009769 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 1.6e-11 257310009770 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 4.3e-27 257310009771 K+ potassium transporter; Region: K_trans; cl15781 257310009772 potassium uptake protein; Region: kup; TIGR00794 257310009773 11 probable transmembrane helices predicted for BB1985 by TMHMM2.0 at aa 21-43, 58-80, 112-134, 144-166, 179-201, 221-243, 256-278, 348-368, 375-397, 407-429 and 434-452 257310009774 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02705, DE K+ potassium transporter score 2e-156 257310009775 argininosuccinate synthase; Validated; Region: PRK05370 257310009776 argininosuccinate synthase; Provisional; Region: PRK13820 257310009777 HMMPfam hit to PF00764, DE Arginosuccinate synthase, score 4.2e-183 257310009778 PS00565 Argininosuccinate synthase signature 2. 257310009779 PS00564 Argininosuccinate synthase signature 1. 257310009780 ornithine carbamoyltransferase; Provisional; Region: PRK00779 257310009781 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 257310009782 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 257310009783 HMMPfam hit to PF00185, DE Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain, score 2.6e-47 257310009784 HMMPfam hit to PF02729, DE Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain, score 6.5e-73 257310009785 PS00097 Aspartate and ornithine carbamoyltransferases signature. 257310009786 acetylornithine aminotransferase; Provisional; Region: PRK02627 257310009787 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310009788 inhibitor-cofactor binding pocket; inhibition site 257310009789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310009790 catalytic residue [active] 257310009791 HMMPfam hit to PF00202, DE Aminotransferase class-III, score 1.4e-140 257310009792 PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site. 257310009793 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 257310009794 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310009795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310009796 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 257310009797 putative effector binding pocket; other site 257310009798 putative dimerization interface [polypeptide binding]; other site 257310009799 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5e-33 257310009800 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.8e-15 257310009801 PS00044 Bacterial regulatory proteins, lysR family signature. 257310009802 Predicted helix-turn-helix motif with score 1117.000, SD 2.99 at aa 17-38, sequence GSFIKAAHALELPRASVSAAVQ 257310009803 short chain dehydrogenase; Provisional; Region: PRK12744 257310009804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310009805 NAD(P) binding site [chemical binding]; other site 257310009806 active site 257310009807 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.6e-27 257310009808 Signal peptide predicted for BB1992 by SignalP 2.0 HMM (Signal peptide probabilty 0.769) with cleavage site probability 0.733 between residues 24 and 25; signal peptide 257310009809 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 257310009810 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 257310009811 putative ligand binding site [chemical binding]; other site 257310009812 NAD binding site [chemical binding]; other site 257310009813 catalytic site [active] 257310009814 HMMPfam hit to PF02826, DE D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain, score 2.5e-36 257310009815 PS00065 D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature. 257310009816 HMMPfam hit to PF00389, DE D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain, score 1.6e-17 257310009817 Signal peptide predicted for BB1993 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 23 and 24; signal peptide 257310009818 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310009819 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.5e-119 257310009820 1 probable transmembrane helix predicted for BB1993 by TMHMM2.0 at aa 7-26 257310009821 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009822 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 257310009823 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 257310009824 inhibitor site; inhibition site 257310009825 active site 257310009826 dimer interface [polypeptide binding]; other site 257310009827 catalytic residue [active] 257310009828 Transcriptional regulators [Transcription]; Region: FadR; COG2186 257310009829 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310009830 DNA-binding site [nucleotide binding]; DNA binding site 257310009831 FCD domain; Region: FCD; pfam07729 257310009832 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.4e-22 257310009833 PS00043 Bacterial regulatory proteins, gntR family signature. 257310009834 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310009835 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 257310009836 HMMPfam hit to PF02615, DE Malate/L-lactate dehydrogenase, score 1.6e-83 257310009837 dihydroxy-acid dehydratase; Validated; Region: PRK06131 257310009838 HMMPfam hit to PF00920, DE Dehydratase family, score 3.8e-221 257310009839 PS00886 Dihydroxy-acid and 6-phosphogluconate dehydratases signature 1. 257310009840 Signal peptide predicted for BB1999 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.780 between residues 29 and 30; signal peptide 257310009841 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310009842 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.8e-114 257310009843 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 257310009844 HMMPfam hit to PF03328, DE HpcH/HpaI aldolase family, score 2.3e-121 257310009845 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 257310009846 HMMPfam hit to PF01649, DE Ribosomal protein S20, score 1.1e-29 257310009847 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 257310009848 FecR protein; Region: FecR; pfam04773 257310009849 1 probable transmembrane helix predicted for BB2002 by TMHMM2.0 at aa 94-116 257310009850 PS00904 Protein prenyltransferases alpha subunit repeat signature. 257310009851 Signal peptide predicted for BB2003 by SignalP 2.0 HMM (Signal peptide probabilty 0.986) with cleavage site probability 0.473 between residues 18 and 19; signal peptide 257310009852 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 257310009853 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 257310009854 14 probable transmembrane helices predicted for BB2003 by TMHMM2.0 at aa 5-27, 37-56, 99-121, 141-163, 170-192, 197-219, 252-274, 289-311, 332-354, 369-391, 403-422, 426-445, 457-479 and 494-516 257310009855 HMMPfam hit to PF03023, DE Virulence factor MVIN, score 2.2e-142 257310009856 PS00038 Myc-type, 'helix-loop-helix' dimerization domain signature. 257310009857 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 257310009858 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 257310009859 NAD binding site [chemical binding]; other site 257310009860 homodimer interface [polypeptide binding]; other site 257310009861 homotetramer interface [polypeptide binding]; other site 257310009862 active site 257310009863 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.4e-48 257310009864 PS00061 Short-chain dehydrogenases/reductases family signature. 257310009865 adenylate kinase; Reviewed; Region: adk; PRK00279 257310009866 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 257310009867 AMP-binding site [chemical binding]; other site 257310009868 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 257310009869 HMMPfam hit to PF00406, DE Adenylate kinase, score 4.3e-127 257310009870 PS00113 Adenylate kinase signature. 257310009871 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 257310009872 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 257310009873 Ligand binding site; other site 257310009874 oligomer interface; other site 257310009875 HMMPfam hit to PF02348, DE Cytidylyltransferase, score 5.2e-61 257310009876 Uncharacterized conserved protein [Function unknown]; Region: COG2835 257310009877 HMMPfam hit to PF03966, DE Protein of unknown function (DUF343), score 2.5e-19 257310009878 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 257310009879 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 257310009880 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02606, DE Tetraacyldisaccharide-1-P 4'-kinase, score 8.9e-69 257310009881 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 257310009882 HMMPfam hit to PF02472, DE Biopolymer transport protein ExbD/TolR, score 2.3e-19 257310009883 1 probable transmembrane helix predicted for BB2009 by TMHMM2.0 at aa 13-35 257310009884 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 257310009885 HMMPfam hit to PF01618, DE MotA/TolQ/ExbB proton channel family, score 1.9e-18 257310009886 3 probable transmembrane helices predicted for BB2010 by TMHMM2.0 at aa 10-32, 107-129 and 149-171 257310009887 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 257310009888 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 257310009889 generic binding surface II; other site 257310009890 generic binding surface I; other site 257310009891 HMMPfam hit to PF01336, DE OB-fold nucleic acid binding domain, score 2e-07 257310009892 HMMPfam hit to PF02601, DE Exonuclease VII, large subunit, score 2.3e-37 257310009893 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 257310009894 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 257310009895 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 257310009896 HMMPfam hit to PF00081, DE Iron/manganese superoxide dismutases, alpha-hairpin domain, score 1e-51 257310009897 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02777, DE Iron/manganese superoxide dismutases, C-terminal domain, score 1e-68 257310009898 PS00088 Manganese and iron superoxide dismutases signature. 257310009899 ortholog of Bordetella pertussis (BX470248) BP2760; chloride-channel protein (pseudogene) 257310009900 Signal peptide predicted for BB2013 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.570 between residues 59 and 60 257310009901 10 probable transmembrane helices predicted for BB2013 by TMHMM2.0 at aa 36-58, 73-95, 116-138, 174-196, 209-231, 246-268, 289-311, 331-353, 379-401 and 411-428 257310009902 HMMPfam hit to PF00654, DE Voltage gated chloride channel, score 3.4e-14 257310009903 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 257310009904 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 257310009905 dimer interface [polypeptide binding]; other site 257310009906 active site 257310009907 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 3.6e-97 257310009908 PS00098 Thiolases acyl-enzyme intermediate signature. 257310009909 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 3.8e-64 257310009910 PS00737 Thiolases signature 2. 257310009911 PS00099 Thiolases active site. 257310009912 Signal peptide predicted for BB2015 by SignalP 2.0 HMM (Signal peptide probabilty 0.779) with cleavage site probability 0.537 between residues 43 and 44; signal peptide 257310009913 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 257310009914 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02643, DE Uncharacterized ACR, COG1430, score 6.5e-24 257310009915 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 257310009916 DNA-binding site [nucleotide binding]; DNA binding site 257310009917 RNA-binding motif; other site 257310009918 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00313, DE 'Cold-shock' DNA-binding domain, score 4.8e-41 257310009919 PS00352 'Cold-shock' DNA-binding domain signature. 257310009920 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 257310009921 HMMPfam hit to PF02617, DE Uncharacterized ACR, COG2127, score 1.2e-33 257310009922 Signal peptide predicted for BB2018 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.376 between residues 17 and 18; signal peptide 257310009923 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 257310009924 MG2 domain; Region: A2M_N; pfam01835 257310009925 Alpha-2-macroglobulin family; Region: A2M; pfam00207 257310009926 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 257310009927 surface patch; other site 257310009928 thioester region; other site 257310009929 specificity defining residues; other site 257310009930 Signal peptide predicted for BB2019 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.500 between residues 26 and 27; signal peptide 257310009931 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 257310009932 Transglycosylase; Region: Transgly; pfam00912 257310009933 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 257310009934 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 257310009935 HMMPfam hit to PF00912, DE Transglycosylase, score 2e-50 257310009936 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009937 HMMPfam hit to PF00905, DE Penicillin binding protein transpeptidase domain, score 1.5e-12 257310009938 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 257310009939 Clp amino terminal domain; Region: Clp_N; pfam02861 257310009940 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310009941 Walker A motif; other site 257310009942 ATP binding site [chemical binding]; other site 257310009943 Walker B motif; other site 257310009944 arginine finger; other site 257310009945 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310009946 Walker A motif; other site 257310009947 ATP binding site [chemical binding]; other site 257310009948 Walker B motif; other site 257310009949 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 257310009950 HMMPfam hit to PF02861, DE Clp amino terminal domain, score 1.4e-11 257310009951 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 3.4e-14 257310009952 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009953 PS00870 Chaperonins clpA/B signature 1. 257310009954 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 0.00015 257310009955 PS00017 ATP/GTP-binding site motif A (P-loop). 257310009956 PS00871 Chaperonins clpA/B signature 2. 257310009957 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 257310009958 Paraquat-inducible protein A; Region: PqiA; pfam04403 257310009959 Paraquat-inducible protein A; Region: PqiA; pfam04403 257310009960 8 probable transmembrane helices predicted for BB2021 by TMHMM2.0 at aa 44-66, 96-118, 139-158, 168-190, 258-280, 306-328, 349-371 and 376-398 257310009961 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 257310009962 mce related protein; Region: MCE; pfam02470 257310009963 mce related protein; Region: MCE; pfam02470 257310009964 mce related protein; Region: MCE; pfam02470 257310009965 1 probable transmembrane helix predicted for BB2022 by TMHMM2.0 at aa 29-51 257310009966 Signal peptide predicted for BB2023 by SignalP 2.0 HMM (Signal peptide probabilty 0.943) with cleavage site probability 0.673 between residues 22 and 23; signal peptide 257310009967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 257310009968 Protein of unknown function (DUF330); Region: DUF330; pfam03886 257310009969 HMMPfam hit to PF03886, DE Protein of unknown function (DUF330), score 5.2e-05 257310009970 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310009971 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 257310009972 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 257310009973 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 257310009974 Glutamate binding site [chemical binding]; other site 257310009975 NAD binding site [chemical binding]; other site 257310009976 catalytic residues [active] 257310009977 HMMPfam hit to PF01619, DE Proline dehydrogenase, score 2.3e-164 257310009978 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 6.2e-92 257310009979 PS00070 Aldehyde dehydrogenases cysteine active site. 257310009980 Signal peptide predicted for BB2025 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 25 and 26; signal peptide 257310009981 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257310009982 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 257310009983 dimerization interface [polypeptide binding]; other site 257310009984 ligand binding site [chemical binding]; other site 257310009985 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 3.7e-05 257310009986 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310009987 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310009988 TM-ABC transporter signature motif; other site 257310009989 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 3.1e-52 257310009990 9 probable transmembrane helices predicted for BB2026 by TMHMM2.0 at aa 15-37, 42-59, 64-86, 102-124, 146-168, 189-211, 216-233, 238-260 and 280-302 257310009991 PS00038 Myc-type, 'helix-loop-helix' dimerization domain signature. 257310009992 Signal peptide predicted for BB2027 by SignalP 2.0 HMM (Signal peptide probabilty 0.937) with cleavage site probability 0.363 between residues 35 and 36; signal peptide 257310009993 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310009994 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310009995 TM-ABC transporter signature motif; other site 257310009996 9 probable transmembrane helices predicted for BB2027 by TMHMM2.0 at aa 13-35, 39-61, 68-85, 95-117, 124-141, 186-204, 235-257, 272-294 and 326-348 257310009997 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.4e-41 257310009998 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310009999 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310010000 Walker A/P-loop; other site 257310010001 ATP binding site [chemical binding]; other site 257310010002 Q-loop/lid; other site 257310010003 ABC transporter signature motif; other site 257310010004 Walker B; other site 257310010005 D-loop; other site 257310010006 H-loop/switch region; other site 257310010007 HMMPfam hit to PF00005, DE ABC transporter score 1e-55 257310010008 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010009 PS00063 Aldo/keto reductase family active site signature. 257310010010 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310010011 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310010012 Walker A/P-loop; other site 257310010013 ATP binding site [chemical binding]; other site 257310010014 Q-loop/lid; other site 257310010015 ABC transporter signature motif; other site 257310010016 Walker B; other site 257310010017 D-loop; other site 257310010018 H-loop/switch region; other site 257310010019 HMMPfam hit to PF00005, DE ABC transporter score 8.5e-48 257310010020 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010021 PS00211 ABC transporters family signature. 257310010022 Signal peptide predicted for BB2030 by SignalP 2.0 HMM (Signal peptide probabilty 0.873) with cleavage site probability 0.731 between residues 33 and 34; signal peptide 257310010023 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310010024 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310010025 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310010026 11 probable transmembrane helices predicted for BB2030 by TMHMM2.0 at aa 13-35, 55-77, 84-106, 111-133, 145-167, 177-196, 245-267, 277-299, 320-342, 366-388 and 395-417 257310010027 Signal peptide predicted for BB2031 by SignalP 2.0 HMM (Signal peptide probabilty 0.877) with cleavage site probability 0.766 between residues 18 and 19; signal peptide 257310010028 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310010029 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310010030 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 7.4e-15 257310010031 Signal peptide predicted for BB2033 by SignalP 2.0 HMM (Signal peptide probabilty 0.952) with cleavage site probability 0.375 between residues 45 and 46; signal peptide 257310010032 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 257310010033 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310010034 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310010035 This hit extended beyond the end of the feature by 1 aa and was clipped.; PS00294 Prenyl group binding site (CAAX box). 257310010036 PS00881 Protein splicing signature. 257310010037 HMMPfam hit to PF03212, DE Pertactin, score 2e-69 257310010038 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 8.2e-82 257310010039 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 257310010040 Signal peptide predicted for BB2034 by SignalP 2.0 HMM (Signal peptide probabilty 0.697) with cleavage site probability 0.630 between residues 25 and 26; signal peptide 257310010041 HMMPfam hit to PF00909, DE Ammonium Transporter Family, score 5.3e-159 257310010042 11 probable transmembrane helices predicted for BB2034 by TMHMM2.0 at aa 10-32, 37-59, 99-121, 128-150, 170-189, 202-221, 236-258, 265-284, 288-307, 320-338 and 358-380 257310010043 PS01219 Ammonium transporters signature. 257310010044 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 257310010045 Nitrogen regulatory protein P-II; Region: P-II; smart00938 257310010046 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00543, DE Nitrogen regulatory protein P-II, score 1.5e-58 257310010047 PS00496 P-II protein urydylation site. 257310010048 Membrane fusogenic activity; Region: BMFP; pfam04380 257310010049 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 257310010050 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 257310010051 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 257310010052 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 257310010053 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 257310010054 HMMPfam hit to PF01632, DE Ribosomal protein L35, score 2e-27 257310010055 PS00936 Ribosomal protein L35 signature. 257310010056 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 257310010057 23S rRNA binding site [nucleotide binding]; other site 257310010058 L21 binding site [polypeptide binding]; other site 257310010059 L13 binding site [polypeptide binding]; other site 257310010060 HMMPfam hit to PF00453, DE Ribosomal protein L20, score 4.4e-56 257310010061 PS00937 Ribosomal protein L20 signature. 257310010062 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 257310010063 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 257310010064 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 257310010065 dimer interface [polypeptide binding]; other site 257310010066 motif 1; other site 257310010067 active site 257310010068 motif 2; other site 257310010069 motif 3; other site 257310010070 HMMPfam hit to PF02912, DE Aminoacyl tRNA synthetase class II, N-terminal domain, score 1.4e-23 257310010071 HMMPfam hit to PF01409, DE tRNA synthetases class II core domain (F), score 7.4e-106 257310010072 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310010073 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310010074 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 257310010075 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 257310010076 putative tRNA-binding site [nucleotide binding]; other site 257310010077 B3/4 domain; Region: B3_4; pfam03483 257310010078 tRNA synthetase B5 domain; Region: B5; smart00874 257310010079 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 257310010080 dimer interface [polypeptide binding]; other site 257310010081 motif 1; other site 257310010082 motif 3; other site 257310010083 motif 2; other site 257310010084 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 257310010085 HMMPfam hit to PF01588, DE tRNA binding domain, score 3.2e-34 257310010086 HMMPfam hit to PF03483, DE B3/4 domain, score 4.2e-66 257310010087 HMMPfam hit to PF03484, DE tRNA synthetase B5 domain, score 1.4e-23 257310010088 HMMPfam hit to PF03147, DE Ferredoxin-fold anticodon binding domain, score 2.1e-05 257310010089 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 257310010090 IHF - DNA interface [nucleotide binding]; other site 257310010091 IHF dimer interface [polypeptide binding]; other site 257310010092 HMMPfam hit to PF00216, DE Bacterial DNA-binding protein, score 6.1e-48 257310010093 PS00045 Bacterial histone-like DNA-binding proteins signature. 257310010094 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 257310010095 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 257310010096 DNA binding residues [nucleotide binding] 257310010097 Predicted helix-turn-helix motif with score 1691.000, SD 4.95 at aa 20-41, sequence FTIGEVSDLCGVKPHVLRYWEQ 257310010098 HMMPfam hit to PF00376, DE Bacterial regulatory proteins, merR family, score 0.00044 257310010099 Signal peptide predicted for BB2044 by SignalP 2.0 HMM (Signal peptide probabilty 0.876) with cleavage site probability 0.749 between residues 27 and 28; signal peptide 257310010100 Signal peptide predicted for BB2045 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.633 between residues 40 and 41; signal peptide 257310010101 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 257310010102 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010103 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310010104 S-adenosylmethionine binding site [chemical binding]; other site 257310010105 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 257310010106 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310010107 Coenzyme A binding pocket [chemical binding]; other site 257310010108 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 2.3e-11 257310010109 Signal peptide predicted for BB2048 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 18 and 19; signal peptide 257310010110 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 257310010111 Signal peptide predicted for BB2049 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.367 between residues 36 and 37; signal peptide 257310010112 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 257310010113 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010114 HMMPfam hit to PF00144, DE Beta-lactamase, score 3.4e-110 257310010115 PS00146 Beta-lactamase class-A active site. 257310010116 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010117 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310010118 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 257310010119 AsnC family; Region: AsnC_trans_reg; pfam01037 257310010120 HMMPfam hit to PF01037, DE AsnC family, score 4.3e-06 257310010121 Predicted helix-turn-helix motif with score 985.000, SD 2.54 at aa 42-63, sequence EPAATLARKLHLARSTVVARIA 257310010122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310010123 DNA-binding site [nucleotide binding]; DNA binding site 257310010124 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 257310010125 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310010126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310010127 homodimer interface [polypeptide binding]; other site 257310010128 catalytic residue [active] 257310010129 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 3.4e-07 257310010130 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 7e-08 257310010131 Signal peptide predicted for BB2056 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.994 between residues 19 and 20; signal peptide 257310010132 Endonuclease I; Region: Endonuclease_1; pfam04231 257310010133 Signal peptide predicted for BB2057 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.464 between residues 25 and 26; signal peptide 257310010134 Entericidin EcnA/B family; Region: Entericidin; cl02322 257310010135 1 probable transmembrane helix predicted for BB2057 by TMHMM2.0 at aa 5-27 257310010136 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010137 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010138 3 probable transmembrane helices predicted for BB2059 by TMHMM2.0 at aa 20-42, 57-79 and 99-121 257310010139 aspartate carbamoyltransferase; Provisional; Region: PRK11891 257310010140 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 257310010141 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 257310010142 HMMPfam hit to PF02729, DE Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain, score 2.8e-48 257310010143 PS00097 Aspartate and ornithine carbamoyltransferases signature. 257310010144 HMMPfam hit to PF00185, DE Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain, score 1.8e-40 257310010145 recombination associated protein; Reviewed; Region: rdgC; PRK00321 257310010146 Signal peptide predicted for BB2062 by SignalP 2.0 HMM (Signal peptide probabilty 0.891) with cleavage site probability 0.382 between residues 18 and 19; signal peptide 257310010147 2 probable transmembrane helices predicted for BB2062 by TMHMM2.0 at aa 5-27 and 48-70 257310010148 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310010149 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310010150 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 8e-75 257310010151 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310010152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310010153 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310010154 dimerization interface [polypeptide binding]; other site 257310010155 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.9e-15 257310010156 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.3e-16 257310010157 PS00044 Bacterial regulatory proteins, lysR family signature. 257310010158 Predicted helix-turn-helix motif with score 1577.000, SD 4.56 at aa 22-43, sequence GSIRAAADLLAISHTVVSRHIQ 257310010159 thiolase; Provisional; Region: PRK06158 257310010160 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310010161 active site 257310010162 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 0.027 257310010163 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 257310010164 DUF35 OB-fold domain; Region: DUF35; pfam01796 257310010165 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310010166 active site 2 [active] 257310010167 active site 1 [active] 257310010168 HMMPfam hit to PF01575, DE MaoC like domain, score 2.5e-16 257310010169 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310010170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310010171 NAD(P) binding site [chemical binding]; other site 257310010172 active site 257310010173 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 6.2e-75 257310010174 PS00061 Short-chain dehydrogenases/reductases family signature. 257310010175 Signal peptide predicted for BB2069 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.997 between residues 30 and 31; signal peptide 257310010176 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 257310010177 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 257310010178 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 0.0091 257310010179 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 257310010180 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310010181 dimer interface [polypeptide binding]; other site 257310010182 conserved gate region; other site 257310010183 putative PBP binding loops; other site 257310010184 ABC-ATPase subunit interface; other site 257310010185 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310010186 dimer interface [polypeptide binding]; other site 257310010187 conserved gate region; other site 257310010188 putative PBP binding loops; other site 257310010189 ABC-ATPase subunit interface; other site 257310010190 12 probable transmembrane helices predicted for BB2070 by TMHMM2.0 at aa 21-43, 77-99, 111-133, 155-177, 208-230, 262-280, 310-332, 371-393, 400-422, 432-454, 495-517 and 539-561 257310010191 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.8e-07 257310010192 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 6.1e-12 257310010193 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310010194 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 257310010195 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310010196 Walker A/P-loop; other site 257310010197 ATP binding site [chemical binding]; other site 257310010198 Q-loop/lid; other site 257310010199 ABC transporter signature motif; other site 257310010200 Walker B; other site 257310010201 D-loop; other site 257310010202 H-loop/switch region; other site 257310010203 TOBE domain; Region: TOBE_2; pfam08402 257310010204 HMMPfam hit to PF00005, DE ABC transporter score 3.7e-60 257310010205 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010206 PS00211 ABC transporters family signature. 257310010207 HMMPfam hit to PF03459, DE TOBE domain, score 1.3e-08 257310010208 enoyl-CoA hydratase; Provisional; Region: PRK06144 257310010209 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310010210 substrate binding site [chemical binding]; other site 257310010211 oxyanion hole (OAH) forming residues; other site 257310010212 trimer interface [polypeptide binding]; other site 257310010213 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 7e-18 257310010214 PS00166 enoyl-CoA hydratase signature. 257310010215 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310010216 putative substrate translocation pore; other site 257310010217 12 probable transmembrane helices predicted for BB2073 by TMHMM2.0 at aa 25-47, 62-84, 96-115, 119-141, 162-184, 199-221, 253-275, 290-312, 319-336, 459-481, 502-524 and 529-548 257310010218 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 3.7e-30 257310010219 PS00217 Sugar transport proteins signature 2. 257310010220 Signal peptide predicted for BB2074 by SignalP 2.0 HMM (Signal peptide probabilty 0.935) with cleavage site probability 0.932 between residues 20 and 21; signal peptide 257310010221 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 257310010222 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257310010223 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310010224 dimer interface [polypeptide binding]; other site 257310010225 phosphorylation site [posttranslational modification] 257310010226 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310010227 ATP binding site [chemical binding]; other site 257310010228 G-X-G motif; other site 257310010229 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 1.4e-37 257310010230 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 2.6e-18 257310010231 HMMPfam hit to PF00672, DE HAMP domain, score 6.6e-09 257310010232 2 probable transmembrane helices predicted for BB2074 by TMHMM2.0 at aa 5-27 and 149-171 257310010233 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310010234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310010235 active site 257310010236 phosphorylation site [posttranslational modification] 257310010237 intermolecular recognition site; other site 257310010238 dimerization interface [polypeptide binding]; other site 257310010239 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310010240 DNA binding site [nucleotide binding] 257310010241 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 9.9e-21 257310010242 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.1e-36 257310010243 recombinase A; Provisional; Region: recA; PRK09354 257310010244 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 257310010245 hexamer interface [polypeptide binding]; other site 257310010246 Walker A motif; other site 257310010247 ATP binding site [chemical binding]; other site 257310010248 Walker B motif; other site 257310010249 HMMPfam hit to PF00154, DE recA bacterial DNA recombination protein, score 3.3e-245 257310010250 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010251 PS00321 recA signature. 257310010252 RecX family; Region: RecX; cl00936 257310010253 HMMPfam hit to PF02631, DE RecX family, score 0.00023 257310010254 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 257310010255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310010256 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 257310010257 putative dimerization interface [polypeptide binding]; other site 257310010258 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.4e-37 257310010259 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.4e-20 257310010260 PS00044 Bacterial regulatory proteins, lysR family signature. 257310010261 Predicted helix-turn-helix motif with score 2186.000, SD 6.63 at aa 17-38, sequence GSLQEAAERLHLTQSALSHQLR 257310010262 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 257310010263 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 257310010264 THF binding site; other site 257310010265 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 257310010266 substrate binding site [chemical binding]; other site 257310010267 THF binding site; other site 257310010268 zinc-binding site [ion binding]; other site 257310010269 HMMPfam hit to PF01717, DE Methionine synthase, vitamin-B12 independent, score 9.4e-218 257310010270 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 257310010271 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 257310010272 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 257310010273 CoA-ligase; Region: Ligase_CoA; pfam00549 257310010274 HMMPfam hit to PF02222, DE ATP-grasp domain, score 2.7e-42 257310010275 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00549, DE CoA-ligase, score 5.2e-71 257310010276 PS01217 ATP-citrate lyase / succinyl-CoA ligases family signature 3. 257310010277 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 257310010278 CoA binding domain; Region: CoA_binding; smart00881 257310010279 CoA-ligase; Region: Ligase_CoA; pfam00549 257310010280 HMMPfam hit to PF02629, DE CoA binding domain, score 2e-52 257310010281 HMMPfam hit to PF00549, DE CoA-ligase, score 1.8e-40 257310010282 PS01216 ATP-citrate lyase / succinyl-CoA ligases family signature 1. 257310010283 PS00399 ATP-citrate lyase / succinyl-CoA ligases family active site. 257310010284 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 257310010285 HMMPfam hit to PF03741, DE Integral membrane protein TerC family, score 3.3e-46 257310010286 7 probable transmembrane helices predicted for BB2083 by TMHMM2.0 at aa 10-32, 45-64, 68-90, 103-125, 135-157, 164-183 and 206-225 257310010287 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 257310010288 HMMPfam hit to PF03741, DE Integral membrane protein TerC family, score 9.7e-47 257310010289 6 probable transmembrane helices predicted for BB2084 by TMHMM2.0 at aa 40-62, 75-97, 135-157, 170-192, 202-224 and 236-255 257310010290 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 257310010291 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 257310010292 domain interfaces; other site 257310010293 active site 257310010294 HMMPfam hit to PF01379, DE Porphobilinogen deaminase, dipyromethane cofactor binding domain, score 3.6e-117 257310010295 HMMPfam hit to PF03900, DE Porphobilinogen deaminase, C-terminal domain, score 4.2e-23 257310010296 PS00533 Porphobilinogen deaminase cofactor-binding site. 257310010297 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 257310010298 active site 257310010299 HMMPfam hit to PF02602, DE Uroporphyrinogen-III synthase HemD, score 1.1e-05 257310010300 Signal peptide predicted for BB2087 by SignalP 2.0 HMM (Signal peptide probabilty 0.680) with cleavage site probability 0.620 between residues 22 and 23; signal peptide 257310010301 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 257310010302 1 probable transmembrane helix predicted for BB2087 by TMHMM2.0 at aa 38-60 257310010303 Signal peptide predicted for BB2088 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.991 between residues 25 and 26; signal peptide 257310010304 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 257310010305 HemY protein N-terminus; Region: HemY_N; pfam07219 257310010306 2 probable transmembrane helices predicted for BB2088 by TMHMM2.0 at aa 4-26 and 46-68 257310010307 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 257310010308 dimer interface [polypeptide binding]; other site 257310010309 substrate binding site [chemical binding]; other site 257310010310 metal binding sites [ion binding]; metal-binding site 257310010311 HMMPfam hit to PF00719, DE Inorganic pyrophosphatase, score 4.2e-60 257310010312 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 257310010313 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 257310010314 HMMPfam hit to PF01557, DE Fumarylacetoacetate (FAA) hydrolase family, score 3e-56 257310010315 Predicted small secreted protein [Function unknown]; Region: COG5510 257310010316 Signal peptide predicted for BB2091 by SignalP 2.0 HMM (Signal peptide probabilty 0.973) with cleavage site probability 0.523 between residues 19 and 20; signal peptide 257310010317 1 probable transmembrane helix predicted for BB2091 by TMHMM2.0 at aa 5-27 257310010318 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010319 1 probable transmembrane helix predicted for BB2092 by TMHMM2.0 at aa 15-37 257310010320 Signal peptide predicted for BB2093 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.323 between residues 31 and 32; signal peptide 257310010321 Signal peptide predicted for BB2094 by SignalP 2.0 HMM (Signal peptide probabilty 0.973) with cleavage site probability 0.720 between residues 30 and 31; signal peptide 257310010322 Signal peptide predicted for BB2095 by SignalP 2.0 HMM (Signal peptide probabilty 0.987) with cleavage site probability 0.646 between residues 24 and 25; signal peptide 257310010323 Signal peptide predicted for BB2096 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.903 between residues 29 and 30; signal peptide 257310010324 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 257310010325 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 257310010326 Signal peptide predicted for BB2097 by SignalP 2.0 HMM (Signal peptide probabilty 0.972) with cleavage site probability 0.543 between residues 36 and 37; signal peptide 257310010327 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 257310010328 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 257310010329 HMMPfam hit to PF00263, DE Bacterial type II and III secretion system protein, score 1.2e-42 257310010330 PS00875 Bacterial type II secretion system protein D signature. 257310010331 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 257310010332 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 257310010333 phosphopeptide binding site; other site 257310010334 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 257310010335 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 257310010336 ATP binding site [chemical binding]; other site 257310010337 Walker A motif; other site 257310010338 hexamer interface [polypeptide binding]; other site 257310010339 Walker B motif; other site 257310010340 HMMPfam hit to PF00498, DE FHA domain, score 2e-08 257310010341 HMMPfam hit to PF00437, DE Type II/IV secretion system protein, score 3.7e-07 257310010342 PS00227 Tubulin subunits alpha, beta, and gamma signature. 257310010343 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010344 Signal peptide predicted for BB2099 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.579 between residues 22 and 23; signal peptide 257310010345 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 257310010346 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 257310010347 5 probable transmembrane helices predicted for BB2099 by TMHMM2.0 at aa 4-23, 44-66, 76-98, 224-241 and 251-273 257310010348 Signal peptide predicted for BB2100 by SignalP 2.0 HMM (Signal peptide probabilty 0.981) with cleavage site probability 0.742 between residues 31 and 32; signal peptide 257310010349 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 257310010350 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 257310010351 4 probable transmembrane helices predicted for BB2100 by TMHMM2.0 at aa 4-26, 95-117, 122-141 and 270-292 257310010352 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010353 5 probable transmembrane helices predicted for BB2101 by TMHMM2.0 at aa 33-55, 96-118, 149-171, 192-214 and 229-251 257310010354 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 257310010355 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 257310010356 putative active site [active] 257310010357 putative substrate binding site [chemical binding]; other site 257310010358 ATP binding site [chemical binding]; other site 257310010359 HMMPfam hit to PF01636, DE Phosphotransferase enzyme family, score 1.8e-13 257310010360 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 257310010361 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 257310010362 FMN binding site [chemical binding]; other site 257310010363 active site 257310010364 catalytic residues [active] 257310010365 substrate binding site [chemical binding]; other site 257310010366 HMMPfam hit to PF01207, DE Dihydrouridine synthase (Dus), score 1.1e-81 257310010367 PS01136 Uncharacterized protein family UPF0034 signature. 257310010368 FOG: CBS domain [General function prediction only]; Region: COG0517 257310010369 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_12; cd04625 257310010370 HMMPfam hit to PF00571, DE CBS domain, score 2.9e-09 257310010371 HMMPfam hit to PF00571, DE CBS domain, score 7.1e-07 257310010372 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 257310010373 HMMPfam hit to PF03631, DE Ribonuclease BN-like family, score 4e-58 257310010374 6 probable transmembrane helices predicted for BB2105 by TMHMM2.0 at aa 46-68, 110-132, 153-175, 190-212, 225-247 and 267-289 257310010375 Signal peptide predicted for BB2106 by SignalP 2.0 HMM (Signal peptide probabilty 0.895) with cleavage site probability 0.759 between residues 26 and 27; signal peptide 257310010376 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 257310010377 2 probable transmembrane helices predicted for BB2106 by TMHMM2.0 at aa 12-34 and 89-111 257310010378 hypothetical protein; Validated; Region: PRK00029 257310010379 Uncharacterized conserved protein [Function unknown]; Region: COG0397 257310010380 HMMPfam hit to PF02696, DE Uncharacterized ACR, YdiU/UPF0061 family, score 1.3e-125 257310010381 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310010382 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310010383 active site 257310010384 phosphorylation site [posttranslational modification] 257310010385 intermolecular recognition site; other site 257310010386 dimerization interface [polypeptide binding]; other site 257310010387 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 257310010388 DNA binding site [nucleotide binding] 257310010389 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 5.7e-27 257310010390 Signal peptide predicted for BB2109 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.623 between residues 34 and 35; signal peptide 257310010391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310010392 metal binding site [ion binding]; metal-binding site 257310010393 active site 257310010394 I-site; other site 257310010395 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 257310010396 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257310010397 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310010398 dimer interface [polypeptide binding]; other site 257310010399 phosphorylation site [posttranslational modification] 257310010400 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310010401 ATP binding site [chemical binding]; other site 257310010402 Mg2+ binding site [ion binding]; other site 257310010403 G-X-G motif; other site 257310010404 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 7.4e-27 257310010405 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 0.00057 257310010406 HMMPfam hit to PF00563, DE EAL domain, score 5.6e-10 257310010407 HMMPfam hit to PF00990, DE GGDEF domain, score 1.7e-06 257310010408 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310010409 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310010410 I-site; other site 257310010411 active site 257310010412 metal binding site [ion binding]; metal-binding site 257310010413 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 257310010414 1 probable transmembrane helix predicted for BB2110 by TMHMM2.0 at aa 10-31 257310010415 HMMPfam hit to PF00563, DE EAL domain, score 3.4e-104 257310010416 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 257310010417 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 257310010418 Tetramer interface [polypeptide binding]; other site 257310010419 active site 257310010420 FMN-binding site [chemical binding]; other site 257310010421 HMMPfam hit to PF01264, DE Chorismate synthase, score 3.5e-185 257310010422 PS00787 Chorismate synthase signature 1. 257310010423 PS00789 Chorismate synthase signature 3. 257310010424 Signal peptide predicted for BB2112 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.574 between residues 29 and 30; signal peptide 257310010425 Peptidase family M48; Region: Peptidase_M48; pfam01435 257310010426 1 probable transmembrane helix predicted for BB2112 by TMHMM2.0 at aa 12-34 257310010427 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010428 PS00142 Neutral zinc metallopeptidases, zinc-binding region signature. 257310010429 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 257310010430 Walker A motif; other site 257310010431 HMMPfam hit to PF03205, DE Molybdopterin guanine dinucleotide synthesis protein B, score 1e-32 257310010432 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010433 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 257310010434 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 257310010435 dimer interface [polypeptide binding]; other site 257310010436 putative functional site; other site 257310010437 putative MPT binding site; other site 257310010438 HMMPfam hit to PF03454, DE MoeA C-terminal region (domain IV), score 1.2e-18 257310010439 HMMPfam hit to PF00994, DE Probable molybdopterin binding domain, score 5.6e-57 257310010440 HMMPfam hit to PF03453, DE MoeA N-terminal region (domain I and II), score 1.1e-57 257310010441 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 257310010442 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 257310010443 GTP binding site; other site 257310010444 Domain of unknown function DUF59; Region: DUF59; pfam01883 257310010445 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 257310010446 Walker A motif; other site 257310010447 HMMPfam hit to PF01883, DE Domain of unknown function DUF59, score 0.0046 257310010448 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010449 HMMPfam hit to PF00991, DE ParA family ATPase, score 0.0028 257310010450 PS01215 Mrp family signature. 257310010451 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 257310010452 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 257310010453 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 257310010454 4Fe-4S binding domain; Region: Fer4; pfam00037 257310010455 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 257310010456 4Fe-4S binding domain; Region: Fer4; pfam00037 257310010457 4Fe-4S binding domain; Region: Fer4; pfam00037 257310010458 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 257310010459 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 5.1e-05 257310010460 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310010461 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 2.8e-08 257310010462 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310010463 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 6.2e-06 257310010464 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310010465 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 9e-05 257310010466 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310010467 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 257310010468 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 257310010469 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 257310010470 [4Fe-4S] binding site [ion binding]; other site 257310010471 molybdopterin cofactor binding site; other site 257310010472 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 257310010473 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 257310010474 molybdopterin cofactor binding site; other site 257310010475 HMMPfam hit to PF00384, DE Molybdopterin oxidoreductase, score 4e-68 257310010476 PS00551 Prokaryotic molybdopterin oxidoreductases signature 1. 257310010477 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010478 HMMPfam hit to PF01568, DE Molydopterin dinucleotide binding domain, score 1.1e-15 257310010479 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 257310010480 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.11 257310010481 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 1.6e-06 257310010482 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310010483 Signal peptide predicted for BB2123 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.517 between residues 22 and 23; signal peptide 257310010484 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010485 Signal peptide predicted for BB2124 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.635 between residues 23 and 24; signal peptide 257310010486 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 257310010487 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 257310010488 6 probable transmembrane helices predicted for BB2124 by TMHMM2.0 at aa 5-24, 123-145, 178-200, 215-234, 272-294 and 309-331 257310010489 Signal peptide predicted for BB2125 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.996 between residues 18 and 19; signal peptide 257310010490 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 257310010491 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 257310010492 PBP superfamily domain; Region: PBP_like; pfam12727 257310010493 HMMPfam hit to PF02573, DE N-terminal HTH domain of molybdenum-binding protein, score 8.9e-06 257310010494 Predicted helix-turn-helix motif with score 1105.000, SD 2.95 at aa 35-56, sequence GSISAAAKALDLSYRHVWGELK 257310010495 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310010496 dimer interface [polypeptide binding]; other site 257310010497 conserved gate region; other site 257310010498 putative PBP binding loops; other site 257310010499 ABC-ATPase subunit interface; other site 257310010500 6 probable transmembrane helices predicted for BB2127 by TMHMM2.0 at aa 7-24, 29-51, 58-80, 90-112, 153-175 and 200-222 257310010501 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 257310010502 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310010503 Walker A/P-loop; other site 257310010504 ATP binding site [chemical binding]; other site 257310010505 Q-loop/lid; other site 257310010506 ABC transporter signature motif; other site 257310010507 Walker B; other site 257310010508 D-loop; other site 257310010509 H-loop/switch region; other site 257310010510 HMMPfam hit to PF00005, DE ABC transporter score 2e-52 257310010511 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010512 PS00211 ABC transporters family signature. 257310010513 Signal peptide predicted for BB2129 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.862 between residues 28 and 29; signal peptide 257310010514 PBP superfamily domain; Region: PBP_like_2; pfam12849 257310010515 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 257310010516 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 257310010517 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 257310010518 substrate binding site [chemical binding]; other site 257310010519 ligand binding site [chemical binding]; other site 257310010520 HMMPfam hit to PF00330, DE Aconitase family (aconitate hydratase), score 5.7e-245 257310010521 PS00450 Aconitase family signature 1. 257310010522 PS01244 Aconitase family signature 2. 257310010523 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 257310010524 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 257310010525 substrate binding site [chemical binding]; other site 257310010526 HMMPfam hit to PF00694, DE Aconitase C-terminal domain, score 5e-68 257310010527 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 257310010528 tartrate dehydrogenase; Region: TTC; TIGR02089 257310010529 HMMPfam hit to PF00180, DE Isocitrate/isopropylmalate dehydrogenase, score 6.8e-196 257310010530 PS00470 Isocitrate and isopropylmalate dehydrogenases signature. 257310010531 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 257310010532 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 257310010533 HMMPfam hit to PF01118, DE Semialdehyde dehydrogenase, NAD binding domain, score 1.1e-46 257310010534 HMMPfam hit to PF02774, DE Semialdehyde dehydrogenase, dimerisation domain, score 2.5e-73 257310010535 PS01103 Aspartate-semialdehyde dehydrogenase signature. 257310010536 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 257310010537 1 probable transmembrane helix predicted for BB2134 by TMHMM2.0 at aa 522-541 257310010538 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 257310010539 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 257310010540 dimerization interface 3.5A [polypeptide binding]; other site 257310010541 active site 257310010542 HMMPfam hit to PF01416, DE tRNA pseudouridine synthase, score 5.4e-28 257310010543 HMMPfam hit to PF01416, DE tRNA pseudouridine synthase, score 5.1e-26 257310010544 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 257310010545 Signal peptide predicted for BB2136 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 27 and 28; signal peptide 257310010546 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310010547 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 1.3e-73 257310010548 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 257310010549 4 probable transmembrane helices predicted for BB2137 by TMHMM2.0 at aa 21-39, 54-71, 91-113 and 133-155 257310010550 Signal peptide predicted for BB2138 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.703 between residues 31 and 32; signal peptide 257310010551 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 257310010552 DctM-like transporters; Region: DctM; pfam06808 257310010553 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310010554 15 probable transmembrane helices predicted for BB2138 by TMHMM2.0 at aa 13-35, 59-81, 94-116, 121-143, 150-172, 182-204, 230-252, 262-284, 296-318, 322-344, 357-379, 394-413, 420-442, 452-469 and 490-512 257310010555 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 257310010556 active site 257310010557 HMMPfam hit to PF00697, DE N-(5'phosphoribosyl)anthranilate (PRA) isomerase, score 5.7e-52 257310010558 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 257310010559 Protein of unknown function (DUF497); Region: DUF497; pfam04365 257310010560 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 257310010561 Uncharacterized conserved protein [Function unknown]; Region: COG5476 257310010562 MlrC C-terminus; Region: MlrC_C; pfam07171 257310010563 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310010564 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310010565 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.9e-85 257310010566 PS00430 TonB-dependent receptor proteins signature 1. 257310010567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 257310010568 YheO-like PAS domain; Region: PAS_6; pfam08348 257310010569 HTH domain; Region: HTH_22; pfam13309 257310010570 This hit extended beyond the end of the feature by 1 aa and was clipped.; Predicted helix-turn-helix motif with score 1772.000, SD 5.22 at aa 189-210, sequence RAKETVAEHLGVSRATVYKAIK 257310010571 Signal peptide predicted for BB2145 by SignalP 2.0 HMM (Signal peptide probabilty 0.883) with cleavage site probability 0.833 between residues 29 and 30; signal peptide 257310010572 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 257310010573 amphipathic channel; other site 257310010574 Asn-Pro-Ala signature motifs; other site 257310010575 HMMPfam hit to PF00230, DE Major intrinsic protein, score 1.3e-52 257310010576 6 probable transmembrane helices predicted for BB2145 by TMHMM2.0 at aa 13-32, 36-58, 88-110, 133-155, 162-184 and 208-230 257310010577 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010578 PS00221 MIP family signature. 257310010579 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 257310010580 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 257310010581 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 257310010582 FeS/SAM binding site; other site 257310010583 HMMPfam hit to PF02473, , score 1.1e-140 257310010584 Response regulator receiver domain; Region: Response_reg; pfam00072 257310010585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310010586 active site 257310010587 phosphorylation site [posttranslational modification] 257310010588 intermolecular recognition site; other site 257310010589 dimerization interface [polypeptide binding]; other site 257310010590 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310010591 DNA binding residues [nucleotide binding] 257310010592 HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 1.3e-15 257310010593 PS00622 Bacterial regulatory proteins, luxR family signature. 257310010594 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.2e-14 257310010595 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 257310010596 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 257310010597 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 257310010598 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 257310010599 active site 257310010600 dimer interface [polypeptide binding]; other site 257310010601 motif 1; other site 257310010602 motif 2; other site 257310010603 motif 3; other site 257310010604 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 257310010605 anticodon binding site; other site 257310010606 HMMPfam hit to PF02824, DE TGS domain, score 3.6e-06 257310010607 HMMPfam hit to PF00587, DE tRNA synthetase class II core domain (G, H, P, S and T), score 1.5e-55 257310010608 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310010609 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310010610 HMMPfam hit to PF03129, DE Anticodon binding domain, score 1.8e-28 257310010611 translation initiation factor IF-3; Region: infC; TIGR00168 257310010612 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 257310010613 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 257310010614 HMMPfam hit to PF00707, DE Translation initiation factor IF-3, score 9.7e-89 257310010615 PS00938 Initiation factor 3 signature. 257310010616 glutathione synthetase; Provisional; Region: PRK05246 257310010617 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 257310010618 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 257310010619 HMMPfam hit to PF02951, DE Prokaryotic glutathione synthetase, N-terminal domain, score 5.1e-27 257310010620 HMMPfam hit to PF02955, DE Prokaryotic glutathione synthetase, ATP-binding domain, score 4.1e-36 257310010621 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 257310010622 active pocket/dimerization site; other site 257310010623 active site 257310010624 phosphorylation site [posttranslational modification] 257310010625 HMMPfam hit to PF03610, DE PTS system fructose IIA component, score 1.3e-11 257310010626 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 257310010627 dimerization domain swap beta strand [polypeptide binding]; other site 257310010628 regulatory protein interface [polypeptide binding]; other site 257310010629 active site 257310010630 regulatory phosphorylation site [posttranslational modification]; other site 257310010631 HMMPfam hit to PF00381, DE PTS HPr component phosphorylation site, score 7.7e-31 257310010632 PS00369 PTS HPR component histidine phosphorylation site signature. 257310010633 PS00589 PTS HPR component serine phosphorylation site signature. 257310010634 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 257310010635 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 257310010636 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 257310010637 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 257310010638 HMMPfam hit to PF00391, DE PEP-utilizing enzyme, mobile domain, score 3.1e-24 257310010639 PS00370 PEP-utilizing enzymes phosphorylation site signature. 257310010640 HMMPfam hit to PF02896, DE PEP-utilizing enzyme, TIM barrel domain, score 6e-127 257310010641 PS00742 PEP-utilizing enzymes signature 2. 257310010642 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 257310010643 HMMPfam hit to PF02566, DE OsmC-like protein, score 1.6e-32 257310010644 ornithine cyclodeaminase; Validated; Region: PRK06141 257310010645 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 257310010646 HMMPfam hit to PF02423, DE Ornithine cyclodeaminase/mu-crystallin family, score 6.7e-57 257310010647 Signal peptide predicted for BB2159 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.822 between residues 23 and 24; signal peptide 257310010648 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257310010649 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 257310010650 putative ligand binding site [chemical binding]; other site 257310010651 Signal peptide predicted for BB2160 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.225 between residues 29 and 30; signal peptide 257310010652 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 257310010653 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310010654 substrate binding pocket [chemical binding]; other site 257310010655 membrane-bound complex binding site; other site 257310010656 hinge residues; other site 257310010657 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010658 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 4.5e-53 257310010659 Signal peptide predicted for BB2161 by SignalP 2.0 HMM (Signal peptide probabilty 0.871) with cleavage site probability 0.763 between residues 35 and 36; signal peptide 257310010660 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310010661 dimer interface [polypeptide binding]; other site 257310010662 conserved gate region; other site 257310010663 putative PBP binding loops; other site 257310010664 ABC-ATPase subunit interface; other site 257310010665 3 probable transmembrane helices predicted for BB2161 by TMHMM2.0 at aa 15-37, 67-89 and 184-206 257310010666 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.3e-12 257310010667 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310010668 dimer interface [polypeptide binding]; other site 257310010669 conserved gate region; other site 257310010670 putative PBP binding loops; other site 257310010671 ABC-ATPase subunit interface; other site 257310010672 5 probable transmembrane helices predicted for BB2162 by TMHMM2.0 at aa 23-45, 50-72, 82-104, 135-157 and 187-209 257310010673 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.9e-15 257310010674 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310010675 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310010676 Walker A/P-loop; other site 257310010677 ATP binding site [chemical binding]; other site 257310010678 Q-loop/lid; other site 257310010679 ABC transporter signature motif; other site 257310010680 Walker B; other site 257310010681 D-loop; other site 257310010682 H-loop/switch region; other site 257310010683 HMMPfam hit to PF00005, DE ABC transporter score 5.8e-65 257310010684 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010685 PS00211 ABC transporters family signature. 257310010686 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 257310010687 trimer interface [polypeptide binding]; other site 257310010688 active site 257310010689 HMMPfam hit to PF00692, DE dUTPase, score 1.1e-44 257310010690 2 probable transmembrane helices predicted for BB2165 by TMHMM2.0 at aa 105-127 and 137-154 257310010691 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 257310010692 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 257310010693 4 probable transmembrane helices predicted for BB2166 by TMHMM2.0 at aa 33-55, 59-81, 143-165 and 175-197 257310010694 HMMPfam hit to PF00597, DE DedA family, score 1e-16 257310010695 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 257310010696 5 probable transmembrane helices predicted for BB2167 by TMHMM2.0 at aa 38-55, 70-89, 102-124, 137-159 and 166-188 257310010697 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310010698 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310010699 putative DNA binding site [nucleotide binding]; other site 257310010700 putative Zn2+ binding site [ion binding]; other site 257310010701 AsnC family; Region: AsnC_trans_reg; pfam01037 257310010702 HMMPfam hit to PF01037, DE AsnC family, score 7.3e-25 257310010703 Predicted helix-turn-helix motif with score 1034.000, SD 2.71 at aa 20-41, sequence ISNAVLAERVGLSASACLRRVA 257310010704 Signal peptide predicted for BB2169 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.900 between residues 24 and 25; signal peptide 257310010705 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 257310010706 5 probable transmembrane helices predicted for BB2169 by TMHMM2.0 at aa 7-29, 52-74, 116-138, 164-186 and 276-298 257310010707 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 257310010708 Flavoprotein; Region: Flavoprotein; pfam02441 257310010709 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 257310010710 HMMPfam hit to PF02441, DE Flavoprotein, score 6.9e-41 257310010711 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010712 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 257310010713 HMMPfam hit to PF01252, DE Signal peptidase (SPase) II, score 2.9e-55 257310010714 4 probable transmembrane helices predicted for BB2171 by TMHMM2.0 at aa 7-24, 72-89, 98-120 and 135-154 257310010715 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 257310010716 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257310010717 active site 257310010718 HIGH motif; other site 257310010719 nucleotide binding site [chemical binding]; other site 257310010720 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 257310010721 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 257310010722 active site 257310010723 KMSKS motif; other site 257310010724 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 257310010725 tRNA binding surface [nucleotide binding]; other site 257310010726 anticodon binding site; other site 257310010727 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 257310010728 HMMPfam hit to PF00133, DE tRNA synthetases class I (I, L, M and V), score 6.8e-246 257310010729 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310010730 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310010731 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 257310010732 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 257310010733 active site 257310010734 Riboflavin kinase; Region: Flavokinase; smart00904 257310010735 HMMPfam hit to PF01687, DE Riboflavin kinase / FAD synthetase, score 1.3e-44 257310010736 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 257310010737 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 257310010738 active site 257310010739 substrate binding site [chemical binding]; other site 257310010740 cosubstrate binding site; other site 257310010741 catalytic site [active] 257310010742 HMMPfam hit to PF00551, DE Formyl transferase, score 3.4e-69 257310010743 16S rRNA methyltransferase B; Provisional; Region: PRK10901 257310010744 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 257310010745 HMMPfam hit to PF01189, DE NOL1/NOP2/sun family, score 4.2e-44 257310010746 Signal peptide predicted for BB2176 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 18 and 19; signal peptide 257310010747 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 257310010748 Fatty acid desaturase; Region: FA_desaturase; pfam00487 257310010749 Di-iron ligands [ion binding]; other site 257310010750 3 probable transmembrane helices predicted for BB2177 by TMHMM2.0 at aa 15-37, 141-163 and 168-187 257310010751 HMMPfam hit to PF00487, DE Fatty acid desaturase, score 4.1e-05 257310010752 Predicted helix-turn-helix motif with score 1213.000, SD 3.32 at aa 302-323, sequence SRQQDAANCRWTTLRRVRRWLH 257310010753 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 257310010754 Part of AAA domain; Region: AAA_19; pfam13245 257310010755 Family description; Region: UvrD_C_2; pfam13538 257310010756 HMMPfam hit to PF00580, DE UvrD/REP helicase, score 5.1e-198 257310010757 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010758 Signal peptide predicted for BB2179 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.967 between residues 27 and 28; signal peptide 257310010759 Secretin and TonB N terminus short domain; Region: STN; smart00965 257310010760 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 257310010761 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 257310010762 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 257310010763 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310010764 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310010765 ABC transporter; Region: ABC_tran_2; pfam12848 257310010766 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310010767 HMMPfam hit to PF00005, DE ABC transporter score 2.1e-27 257310010768 PS00211 ABC transporters family signature. 257310010769 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010770 HMMPfam hit to PF00005, DE ABC transporter score 1.6e-39 257310010771 PS00211 ABC transporters family signature. 257310010772 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010773 HemK family putative methylases; Region: hemK_fam; TIGR00536 257310010774 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310010775 S-adenosylmethionine binding site [chemical binding]; other site 257310010776 PS00092 N-6 Adenine-specific DNA methylases signature. 257310010777 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 257310010778 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 257310010779 metal binding site [ion binding]; metal-binding site 257310010780 dimer interface [polypeptide binding]; other site 257310010781 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 3.4e-85 257310010782 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 257310010783 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 257310010784 trimer interface [polypeptide binding]; other site 257310010785 active site 257310010786 substrate binding site [chemical binding]; other site 257310010787 CoA binding site [chemical binding]; other site 257310010788 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 2.6e+02 257310010789 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 4 257310010790 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 5.9 257310010791 PS00101 Hexapeptide-repeat containing-transferases signature. 257310010792 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 1.7e+02 257310010793 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 257310010794 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310010795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310010796 homodimer interface [polypeptide binding]; other site 257310010797 catalytic residue [active] 257310010798 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 1.5e-13 257310010799 PS00215 Mitochondrial energy transfer proteins signature. 257310010800 Prophage 257310010801 integrase; Provisional; Region: int; PHA02601 257310010802 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 257310010803 catalytic residues [active] 257310010804 Int/Topo IB signature motif; other site 257310010805 HMMPfam hit to PF00589, DE Phage integrase family, score 1.3e-21 257310010806 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 257310010807 Signal peptide predicted for BB2187 by SignalP 2.0 HMM (Signal peptide probabilty 0.942) with cleavage site probability 0.844 between residues 21 and 22; signal peptide 257310010808 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 257310010809 RecT family; Region: RecT; pfam03837 257310010810 HMMPfam hit to PF03837, DE RecT protein, score 1e-09 257310010811 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010812 1 probable transmembrane helix predicted for BB2193 by TMHMM2.0 at aa 20-39 257310010813 PS00430 TonB-dependent receptor proteins signature 1. 257310010814 P63C domain; Region: P63C; pfam10546 257310010815 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 257310010816 Predicted transcriptional regulator [Transcription]; Region: COG2932 257310010817 Catalytic site [active] 257310010818 1 probable transmembrane helix predicted for BB2201 by TMHMM2.0 at aa 144-166 257310010819 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 257310010820 sequence-specific DNA binding site [nucleotide binding]; other site 257310010821 salt bridge; other site 257310010822 Predicted helix-turn-helix motif with score 1119.000, SD 3.00 at aa 28-49, sequence STRAKARDRLGWDDSQVSRFLS 257310010823 NinB protein; Region: NinB; pfam05772 257310010824 PS00211 ABC transporters family signature. 257310010825 HNH endonuclease; Region: HNH_3; pfam13392 257310010826 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 257310010827 Predicted helix-turn-helix motif with score 1638.000, SD 4.77 at aa 123-144, sequence EKLKDLARSFGVSESNVSVVAN 257310010828 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 257310010829 PS00190 Cytochrome c family heme-binding site signature. 257310010830 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 257310010831 Walker A motif; other site 257310010832 ATP binding site [chemical binding]; other site 257310010833 Walker B motif; other site 257310010834 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010835 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cl17280 257310010836 active site 257310010837 putative DNA-binding cleft [nucleotide binding]; other site 257310010838 dimer interface [polypeptide binding]; other site 257310010839 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 257310010840 DNA binding residues [nucleotide binding] 257310010841 Predicted helix-turn-helix motif with score 1787.000, SD 5.27 at aa 22-43, sequence LNEEQIASALGISYSTLRRHKA 257310010842 Phage terminase large subunit; Region: Terminase_3; cl12054 257310010843 Terminase-like family; Region: Terminase_6; pfam03237 257310010844 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010845 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 257310010846 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 257310010847 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 257310010848 HNH endonuclease; Region: HNH_3; pfam13392 257310010849 Phage tail protein; Region: Phage_tail_3; pfam08813 257310010850 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 257310010851 PS00175 Phosphoglycerate mutase family phosphohistidine signature. 257310010852 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 257310010853 Phage-related minor tail protein [Function unknown]; Region: COG5281 257310010854 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 257310010855 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 257310010856 PS00165 Serine/threonine dehydratases pyridoxal-phosphate attachment site. 257310010857 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 257310010858 NlpC/P60 family; Region: NLPC_P60; cl17555 257310010859 Phage-related protein, tail component [Function unknown]; Region: COG4733 257310010860 Putative phage tail protein; Region: Phage-tail_3; pfam13550 257310010861 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 257310010862 2 probable transmembrane helices predicted for BB2234 by TMHMM2.0 at aa 63-85 and 92-114 257310010863 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 257310010864 1 probable transmembrane helix predicted for BB2239 by TMHMM2.0 at aa 32-51 257310010865 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 257310010866 catalytic residue [active] 257310010867 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 257310010868 translocation protein TolB; Provisional; Region: tolB; PRK02889 257310010869 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 257310010870 HMMPfam hit to PF02586, DE Uncharacterized ACR, COG2135, score 2.1e-31 257310010871 Signal peptide predicted for BB2245 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.996 between residues 21 and 22; signal peptide 257310010872 Signal peptide predicted for BB2246 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.976 between residues 32 and 33; signal peptide 257310010873 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310010874 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 1.1e-56 257310010875 Signal peptide predicted for BB2247 by SignalP 2.0 HMM (Signal peptide probabilty 0.626) with cleavage site probability 0.236 between residues 31 and 32; signal peptide 257310010876 3 probable transmembrane helices predicted for BB2247 by TMHMM2.0 at aa 6-28, 33-50 and 60-82 257310010877 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 257310010878 DNA-binding site [nucleotide binding]; DNA binding site 257310010879 RNA-binding motif; other site 257310010880 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00313, DE 'Cold-shock' DNA-binding domain, score 8.4e-37 257310010881 PS00352 'Cold-shock' DNA-binding domain signature. 257310010882 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 257310010883 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 257310010884 DNA-binding site [nucleotide binding]; DNA binding site 257310010885 RNA-binding motif; other site 257310010886 HMMPfam hit to PF00313, DE 'Cold-shock' DNA-binding domain, score 2.2e-39 257310010887 PS00352 'Cold-shock' DNA-binding domain signature. 257310010888 hypothetical protein; Provisional; Region: PRK05208 257310010889 HMMPfam hit to PF03350, DE Uncharacterized protein family, UPF0114, score 5.4e-73 257310010890 4 probable transmembrane helices predicted for BB2252 by TMHMM2.0 at aa 30-52, 67-89, 122-139 and 154-176 257310010891 trigger factor; Provisional; Region: tig; PRK01490 257310010892 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 257310010893 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 257310010894 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010895 Clp protease; Region: CLP_protease; pfam00574 257310010896 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 257310010897 oligomer interface [polypeptide binding]; other site 257310010898 active site residues [active] 257310010899 HMMPfam hit to PF00574, DE Clp protease, score 1.6e-125 257310010900 PS00382 Endopeptidase Clp histidine active site. 257310010901 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 257310010902 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 257310010903 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 257310010904 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310010905 Walker A motif; other site 257310010906 ATP binding site [chemical binding]; other site 257310010907 Walker B motif; other site 257310010908 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 257310010909 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 2.1e-23 257310010910 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010911 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 257310010912 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310010913 Walker A motif; other site 257310010914 ATP binding site [chemical binding]; other site 257310010915 Walker B motif; other site 257310010916 arginine finger; other site 257310010917 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 257310010918 HMMPfam hit to PF02190, DE ATP-dependent protease La (LON) domain, score 1.3e-47 257310010919 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 2e-46 257310010920 PS00017 ATP/GTP-binding site motif A (P-loop). 257310010921 PS01046 ATP-dependent serine proteases, lon family, serine active site. 257310010922 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 257310010923 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310010924 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 257310010925 dimerization interface [polypeptide binding]; other site 257310010926 substrate binding pocket [chemical binding]; other site 257310010927 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.3e-43 257310010928 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.8e-19 257310010929 PS00044 Bacterial regulatory proteins, lysR family signature. 257310010930 Predicted helix-turn-helix motif with score 1471.000, SD 4.20 at aa 34-55, sequence LNFRRAADRLHMTQPPLTVAIQ 257310010931 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310010932 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310010933 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 3.3e-87 257310010934 Signal peptide predicted for BB2259 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.878 between residues 24 and 25; signal peptide 257310010935 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310010936 PS00099 Thiolases active site. 257310010937 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.4e-85 257310010938 Signal peptide predicted for BB2260 by SignalP 2.0 HMM (Signal peptide probabilty 0.826) with cleavage site probability 0.385 between residues 23 and 24; signal peptide 257310010939 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 257310010940 putative active site [active] 257310010941 putative catalytic site [active] 257310010942 HMMPfam hit to PF01575, DE MaoC like domain, score 7.6e-18 257310010943 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310010944 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310010945 substrate binding site [chemical binding]; other site 257310010946 oxyanion hole (OAH) forming residues; other site 257310010947 trimer interface [polypeptide binding]; other site 257310010948 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 9.5e-46 257310010949 PS00166 enoyl-CoA hydratase signature. 257310010950 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 257310010951 DUF35 OB-fold domain; Region: DUF35; pfam01796 257310010952 HMMPfam hit to PF01796, DE Domain of unknown function DUF35, score 3.2e-15 257310010953 thiolase; Provisional; Region: PRK06158 257310010954 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310010955 active site 257310010956 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 0.00049 257310010957 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 257310010958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310010959 NAD(P) binding site [chemical binding]; other site 257310010960 active site 257310010961 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 8.9e-76 257310010962 PS00061 Short-chain dehydrogenases/reductases family signature. 257310010963 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310010964 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310010965 active site 257310010966 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 0.00034 257310010967 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 3.4e-13 257310010968 PS00072 Acyl-CoA dehydrogenases signature 1. 257310010969 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310010970 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.3e-19 257310010971 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 257310010972 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01144, DE Coenzyme A transferase, score 1.4e-88 257310010973 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 257310010974 HMMPfam hit to PF01144, DE Coenzyme A transferase, score 3.7e-38 257310010975 PS01274 CoA transferases signature 2. 257310010976 Signal peptide predicted for BB2269 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 21 and 22; signal peptide 257310010977 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310010978 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 5.5e-86 257310010979 Signal peptide predicted for BB2270 by SignalP 2.0 HMM (Signal peptide probabilty 0.981) with cleavage site probability 0.833 between residues 56 and 57; signal peptide 257310010980 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310010981 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310010982 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 9.5e-81 257310010983 PS00697 ATP-dependent DNA ligase AMP-binding site. 257310010984 LexA repressor; Validated; Region: PRK00215 257310010985 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 257310010986 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 257310010987 Catalytic site [active] 257310010988 HMMPfam hit to PF00717, DE Peptidase family S24, score 3.9e-46 257310010989 HMMPfam hit to PF01726, DE LexA DNA binding domain, score 6.4e-35 257310010990 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 257310010991 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310010992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310010993 homodimer interface [polypeptide binding]; other site 257310010994 catalytic residue [active] 257310010995 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 1.2e-96 257310010996 PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site. 257310010997 excinuclease ABC subunit B; Provisional; Region: PRK05298 257310010998 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 257310010999 ATP binding site [chemical binding]; other site 257310011000 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 257310011001 nucleotide binding region [chemical binding]; other site 257310011002 ATP-binding site [chemical binding]; other site 257310011003 Ultra-violet resistance protein B; Region: UvrB; pfam12344 257310011004 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011005 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 1.8e-17 257310011006 HMMPfam hit to PF02151, DE UvrB/uvrC motif, score 1.2e-08 257310011007 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 257310011008 Low molecular weight phosphatase family; Region: LMWPc; cd00115 257310011009 active site 257310011010 HMMPfam hit to PF01451, DE Low molecular weight phosphotyrosine protein phosphatase, score 4e-46 257310011011 Predicted transcriptional regulator [Transcription]; Region: COG1959 257310011012 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 257310011013 HMMPfam hit to PF02082, DE Uncharacterized protein family UPF0074, score 1.8e-52 257310011014 Predicted helix-turn-helix motif with score 1117.000, SD 2.99 at aa 26-47, sequence VTLAAISQRQNISLSYLEQLFG 257310011015 cysteine desulfurase; Provisional; Region: PRK14012 257310011016 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 257310011017 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310011018 catalytic residue [active] 257310011019 HMMPfam hit to PF00266, DE Aminotransferase class-V, score 7.4e-116 257310011020 PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 257310011021 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 257310011022 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 257310011023 trimerization site [polypeptide binding]; other site 257310011024 active site 257310011025 HMMPfam hit to PF01592, DE NifU-like N terminal domain, score 1.3e-79 257310011026 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 257310011027 HMMPfam hit to PF01521, DE HesB-like domain, score 2.7e-50 257310011028 PS01152 Hypothetical hesB/yadR/yfhF family signature. 257310011029 co-chaperone HscB; Provisional; Region: hscB; PRK03578 257310011030 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 257310011031 HSP70 interaction site [polypeptide binding]; other site 257310011032 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 257310011033 HMMPfam hit to PF00226, DE DnaJ domain, score 2.9e-05 257310011034 chaperone protein HscA; Provisional; Region: hscA; PRK05183 257310011035 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 257310011036 nucleotide binding site [chemical binding]; other site 257310011037 HMMPfam hit to PF00012, DE Hsp70 protein, score 3.4e-210 257310011038 PS00297 Heat shock hsp70 proteins family signature 1. 257310011039 PS00329 Heat shock hsp70 proteins family signature 2. 257310011040 PS01036 Heat shock hsp70 proteins family signature 3. 257310011041 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 257310011042 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310011043 catalytic loop [active] 257310011044 iron binding site [ion binding]; other site 257310011045 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 1e-08 257310011046 PS00814 Adrenodoxin family, iron-sulfur binding region signature. 257310011047 PS00190 Cytochrome c family heme-binding site signature. 257310011048 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 257310011049 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 257310011050 active site 257310011051 dimer interfaces [polypeptide binding]; other site 257310011052 catalytic residues [active] 257310011053 HMMPfam hit to PF02142, DE MGS-like domain, score 0.0007 257310011054 PS01335 Methylglyoxal synthase active site. 257310011055 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310011056 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310011057 substrate binding site [chemical binding]; other site 257310011058 oxyanion hole (OAH) forming residues; other site 257310011059 trimer interface [polypeptide binding]; other site 257310011060 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 257310011061 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 4.4e-35 257310011062 PS00166 enoyl-CoA hydratase signature. 257310011063 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310011064 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310011065 Walker A/P-loop; other site 257310011066 ATP binding site [chemical binding]; other site 257310011067 Q-loop/lid; other site 257310011068 ABC transporter signature motif; other site 257310011069 Walker B; other site 257310011070 D-loop; other site 257310011071 H-loop/switch region; other site 257310011072 HMMPfam hit to PF00005, DE ABC transporter score 2e-53 257310011073 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011074 Signal peptide predicted for BB2286 by SignalP 2.0 HMM (Signal peptide probabilty 0.805) with cleavage site probability 0.421 between residues 23 and 24; signal peptide 257310011075 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310011076 TM-ABC transporter signature motif; other site 257310011077 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 3.8e-29 257310011078 8 probable transmembrane helices predicted for BB2286 by TMHMM2.0 at aa 10-29, 36-55, 59-81, 94-116, 143-165, 190-212, 227-249 and 256-278 257310011079 Signal peptide predicted for BB2287 by SignalP 2.0 HMM (Signal peptide probabilty 0.872) with cleavage site probability 0.828 between residues 42 and 43; signal peptide 257310011080 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310011081 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310011082 TM-ABC transporter signature motif; other site 257310011083 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1e-11 257310011084 9 probable transmembrane helices predicted for BB2287 by TMHMM2.0 at aa 25-47, 60-82, 97-119, 124-143, 172-191, 221-242, 257-279, 286-305 and 309-331 257310011085 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310011086 Signal peptide predicted for BB2288 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.994 between residues 30 and 31; signal peptide 257310011087 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 257310011088 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310011089 putative ligand binding site [chemical binding]; other site 257310011090 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310011091 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310011092 Walker A/P-loop; other site 257310011093 ATP binding site [chemical binding]; other site 257310011094 Q-loop/lid; other site 257310011095 ABC transporter signature motif; other site 257310011096 Walker B; other site 257310011097 D-loop; other site 257310011098 H-loop/switch region; other site 257310011099 HMMPfam hit to PF00005, DE ABC transporter score 2.2e-29 257310011100 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011101 PS00211 ABC transporters family signature. 257310011102 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 257310011103 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310011104 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 257310011105 acyl-activating enzyme (AAE) consensus motif; other site 257310011106 putative AMP binding site [chemical binding]; other site 257310011107 putative active site [active] 257310011108 putative CoA binding site [chemical binding]; other site 257310011109 HMMPfam hit to PF00501, DE AMP-binding protein, score 1.1e-78 257310011110 PS00455 AMP-binding domain signature. 257310011111 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310011112 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310011113 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 1.4e-16 257310011114 PS01081 Bacterial regulatory proteins, tetR family signature. 257310011115 Predicted helix-turn-helix motif with score 1174.000, SD 3.19 at aa 36-57, sequence TTVRELARAVGLQSGSLFHHFR 257310011116 Signal peptide predicted for BB2292 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.444 between residues 16 and 17; signal peptide 257310011117 3 probable transmembrane helices predicted for BB2292 by TMHMM2.0 at aa 5-22, 43-65 and 85-107 257310011118 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 257310011119 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 257310011120 dimer interface [polypeptide binding]; other site 257310011121 putative anticodon binding site; other site 257310011122 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 257310011123 motif 1; other site 257310011124 active site 257310011125 motif 2; other site 257310011126 motif 3; other site 257310011127 HMMPfam hit to PF00152, DE tRNA synthetases class II (D, K and N), score 6e-159 257310011128 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310011129 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310011130 HMMPfam hit to PF01336, DE OB-fold nucleic acid binding domain, score 9.7e-14 257310011131 short chain dehydrogenase; Provisional; Region: PRK07023 257310011132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310011133 NAD(P) binding site [chemical binding]; other site 257310011134 active site 257310011135 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00106, DE short chain dehydrogenase, score 5.4e-30 257310011136 peptide chain release factor 2; Validated; Region: prfB; PRK00578 257310011137 This domain is found in peptide chain release factors; Region: PCRF; smart00937 257310011138 RF-1 domain; Region: RF-1; pfam00472 257310011139 HMMPfam hit to PF00472, DE Peptidyl-tRNA hydrolase domain, score 5.5e-63 257310011140 HMMPfam hit to PF03462, DE PCRF domain, score 1.1e-48 257310011141 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 257310011142 DHH family; Region: DHH; pfam01368 257310011143 DHHA1 domain; Region: DHHA1; pfam02272 257310011144 HMMPfam hit to PF02272, DE DHHA1 domain, score 5.3e-10 257310011145 HMMPfam hit to PF01368, DE DHH family, score 5.1e-40 257310011146 Signal peptide predicted for BB2297 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.712 between residues 25 and 26; signal peptide 257310011147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 257310011148 Signal peptide predicted for BB2298 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.517 between residues 29 and 30; signal peptide 257310011149 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 257310011150 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 257310011151 4 probable transmembrane helices predicted for BB2298 by TMHMM2.0 at aa 13-35, 269-291, 315-337 and 376-398 257310011152 HMMPfam hit to PF02687, DE Predicted permease, score 7.7e-44 257310011153 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 257310011154 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 257310011155 Walker A/P-loop; other site 257310011156 ATP binding site [chemical binding]; other site 257310011157 Q-loop/lid; other site 257310011158 ABC transporter signature motif; other site 257310011159 Walker B; other site 257310011160 D-loop; other site 257310011161 H-loop/switch region; other site 257310011162 HMMPfam hit to PF00005, DE ABC transporter score 1.2e-58 257310011163 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011164 PS00211 ABC transporters family signature. 257310011165 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 257310011166 active site 257310011167 PS01137 Uncharacterized protein family UPF0006 signature 1. 257310011168 HMMPfam hit to PF01026, DE TatD related DNase, score 1.7e-53 257310011169 Signal peptide predicted for BB2301 by SignalP 2.0 HMM (Signal peptide probabilty 0.977) with cleavage site probability 0.936 between residues 29 and 30; signal peptide 257310011170 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 257310011171 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310011172 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310011173 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 7.7e-29 257310011174 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 257310011175 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 257310011176 1 probable transmembrane helix predicted for BB2303 by TMHMM2.0 at aa 44-66 257310011177 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011178 PS00237 G-protein coupled receptors signature. 257310011179 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 257310011180 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 257310011181 Competence protein; Region: Competence; pfam03772 257310011182 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 257310011183 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 257310011184 9 probable transmembrane helices predicted for BB2304 by TMHMM2.0 at aa 7-26, 31-50, 222-244, 259-281, 301-323, 362-384, 397-419, 434-456 and 463-485 257310011185 HMMPfam hit to PF03772, DE Competence protein, score 6.9e-36 257310011186 HMMPfam hit to PF00753, DE Metallo-beta-lactamase superfamily, score 0.0014 257310011187 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 257310011188 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 257310011189 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 0.00038 257310011190 1 probable transmembrane helix predicted for BB2305 by TMHMM2.0 at aa 115-137 257310011191 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 257310011192 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 257310011193 active site 257310011194 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 257310011195 HMMPfam hit to PF02231, DE PHP domain N-terminal region, score 1.7e-18 257310011196 HMMPfam hit to PF02811, DE PHP domain C-terminal region, score 0.55 257310011197 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 257310011198 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 257310011199 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 257310011200 HMMPfam hit to PF03449, DE Prokaryotic transcription elongation factor, GreA/GreB, N-terminal domain, score 6.6e-32 257310011201 PS00829 Prokaryotic transcription elongation factors signature 1. 257310011202 HMMPfam hit to PF01272, DE Prokaryotic transcription elongation factor, GreA/GreB, C-terminal domain, score 2.3e-20 257310011203 Signal peptide predicted for BB2308 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.994 between residues 24 and 25; signal peptide 257310011204 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310011205 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 257310011206 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 1.6e-83 257310011207 Signal peptide predicted for BB2309 by SignalP 2.0 HMM (Signal peptide probabilty 0.939) with cleavage site probability 0.469 between residues 25 and 26; signal peptide 257310011208 DctM-like transporters; Region: DctM; pfam06808 257310011209 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310011210 11 probable transmembrane helices predicted for BB2309 by TMHMM2.0 at aa 5-27, 51-73, 108-130, 145-167, 174-196, 239-261, 282-304, 319-336, 341-358, 362-384 and 397-419 257310011211 HMMPfam hit to PF00597, DE DedA family, score 2.6e-08 257310011212 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310011213 4 probable transmembrane helices predicted for BB2310 by TMHMM2.0 at aa 47-69, 79-101, 122-144 and 159-181 257310011214 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 257310011215 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 257310011216 dimerization interface [polypeptide binding]; other site 257310011217 ATP binding site [chemical binding]; other site 257310011218 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 257310011219 dimerization interface [polypeptide binding]; other site 257310011220 ATP binding site [chemical binding]; other site 257310011221 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 257310011222 putative active site [active] 257310011223 catalytic triad [active] 257310011224 HMMPfam hit to PF00586, DE AIR synthase related protein, N-terminal domain, score 1.9e-11 257310011225 HMMPfam hit to PF02769, DE AIR synthase related protein, C-terminal domain, score 5.9e-38 257310011226 HMMPfam hit to PF02769, DE AIR synthase related protein, C-terminal domain, score 1.8e-16 257310011227 Signal peptide predicted for BB2312 by SignalP 2.0 HMM (Signal peptide probabilty 0.771) with cleavage site probability 0.771 between residues 55 and 56; signal peptide 257310011228 haemagglutination activity domain; Region: Haemagg_act; pfam05860 257310011229 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 257310011230 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 257310011231 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310011232 Predicted helix-turn-helix motif with score 996.000, SD 2.58 at aa 1087-1108, sequence ISQSALAAKGDKGKPAVSVKVA 257310011233 hypothetical protein; Provisional; Region: PRK07907 257310011234 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 257310011235 metal binding site [ion binding]; metal-binding site 257310011236 putative dimer interface [polypeptide binding]; other site 257310011237 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 1.9e-10 257310011238 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 257310011239 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 257310011240 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 257310011241 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 257310011242 Signal peptide predicted for BB2316 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 24 and 25; signal peptide 257310011243 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310011244 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.5e-82 257310011245 Methyltransferase domain; Region: Methyltransf_32; pfam13679 257310011246 Methyltransferase domain; Region: Methyltransf_31; pfam13847 257310011247 Signal peptide predicted for BB2318 by SignalP 2.0 HMM (Signal peptide probabilty 0.666) with cleavage site probability 0.446 between residues 25 and 26; signal peptide 257310011248 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 257310011249 7 probable transmembrane helices predicted for BB2318 by TMHMM2.0 at aa 5-27, 37-56, 69-91, 150-172, 185-207, 211-233 and 245-263 257310011250 HMMPfam hit to PF01925, DE Domain of unknown function DUF81, score 8.5e-07 257310011251 Signal peptide predicted for BB2319 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.338 between residues 24 and 25; signal peptide 257310011252 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 257310011253 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 257310011254 catalytic residues [active] 257310011255 4 probable transmembrane helices predicted for BB2319 by TMHMM2.0 at aa 10-32, 44-61, 81-99 and 112-134 257310011256 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310011257 PS00194 Thioredoxin family active site. 257310011258 Signal peptide predicted for BB2320 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 32 and 33; signal peptide 257310011259 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 257310011260 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 257310011261 dimerization domain [polypeptide binding]; other site 257310011262 dimer interface [polypeptide binding]; other site 257310011263 catalytic residues [active] 257310011264 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 257310011265 Dimer interface [polypeptide binding]; other site 257310011266 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 257310011267 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310011268 dimerization interface [polypeptide binding]; other site 257310011269 DNA binding residues [nucleotide binding] 257310011270 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 0.0017 257310011271 Predicted helix-turn-helix motif with score 993.000, SD 2.57 at aa 328-349, sequence LTVKGYALRADLSEQTVRGHLK 257310011272 Signal peptide predicted for BB2324 by SignalP 2.0 HMM (Signal peptide probabilty 0.991) with cleavage site probability 0.944 between residues 34 and 35; signal peptide 257310011273 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310011274 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310011275 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 0.00042 257310011276 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 257310011277 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 257310011278 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 257310011279 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 257310011280 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 257310011281 active site 257310011282 HMMPfam hit to PF01574, , score 1.1e-56 257310011283 HMMPfam hit to PF00571, DE CBS domain, score 3.9e-12 257310011284 HMMPfam hit to PF00571, DE CBS domain, score 4e-09 257310011285 HMMPfam hit to PF00478, DE IMP dehydrogenase / GMP reductase, score 1.9e-122 257310011286 PS00487 IMP dehydrogenase / GMP reductase signature. 257310011287 GMP synthase; Reviewed; Region: guaA; PRK00074 257310011288 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 257310011289 AMP/PPi binding site [chemical binding]; other site 257310011290 candidate oxyanion hole; other site 257310011291 catalytic triad [active] 257310011292 potential glutamine specificity residues [chemical binding]; other site 257310011293 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 257310011294 ATP Binding subdomain [chemical binding]; other site 257310011295 Ligand Binding sites [chemical binding]; other site 257310011296 Dimerization subdomain; other site 257310011297 HMMPfam hit to PF00117, DE Glutamine amidotransferase class-I, score 4.5e-37 257310011298 PS00442 Glutamine amidotransferases class-I active site. 257310011299 HMMPfam hit to PF00958, DE GMP synthase C terminal domain, score 3.1e-64 257310011300 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310011301 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310011302 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 0.00015 257310011303 Predicted helix-turn-helix motif with score 1193.000, SD 3.25 at aa 61-82, sequence ITFGQVAERAEVGKSNLQVLFG 257310011304 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 257310011305 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310011306 putative substrate translocation pore; other site 257310011307 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0093 257310011308 14 probable transmembrane helices predicted for BB2330 by TMHMM2.0 at aa 19-41, 56-75, 87-109, 113-135, 142-164, 174-196, 209-228, 233-255, 277-299, 309-331, 344-366, 376-398, 411-433 and 448-470 257310011309 Signal peptide predicted for BB2331 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.985 between residues 20 and 21; signal peptide 257310011310 10 probable transmembrane helices predicted for BB2331 by TMHMM2.0 at aa 26-45, 60-82, 94-111, 116-138, 151-170, 180-202, 234-256, 260-282, 354-376 and 380-402 257310011311 Predicted transcriptional regulators [Transcription]; Region: COG1733 257310011312 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 257310011313 HMMPfam hit to PF01638, DE Transcriptional regulator, score 9e-22 257310011314 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 257310011315 gating phenylalanine in ion channel; other site 257310011316 10 probable transmembrane helices predicted for BB2333 by TMHMM2.0 at aa 20-42, 52-69, 90-112, 116-138, 151-173, 188-210, 223-245, 260-282, 295-317 and 327-349 257310011317 HMMPfam hit to PF03595, DE C4-dicarboxylate transporter/malic acid transport protein, score 4e-06 257310011318 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 257310011319 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310011320 putative substrate translocation pore; other site 257310011321 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0054 257310011322 12 probable transmembrane helices predicted for BB2334 by TMHMM2.0 at aa 24-46, 66-88, 95-117, 122-144, 151-173, 177-196, 227-249, 264-286, 293-312, 317-339, 352-374 and 379-401 257310011323 Signal peptide predicted for BB2336 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 34 and 35; signal peptide 257310011324 Uncharacterized conserved protein [Function unknown]; Region: COG4925 257310011325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310011326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310011327 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 257310011328 putative effector binding pocket; other site 257310011329 putative dimerization interface [polypeptide binding]; other site 257310011330 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 9.4e-26 257310011331 Predicted helix-turn-helix motif with score 1959.000, SD 5.86 at aa 27-48, sequence GSFTRAAALLGVTQSALSQAIS 257310011332 PS00044 Bacterial regulatory proteins, lysR family signature. 257310011333 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 9.7e-40 257310011334 Signal peptide predicted for BB2338 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.370 between residues 42 and 43; signal peptide 257310011335 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 257310011336 conserved cys residue [active] 257310011337 HMMPfam hit to PF01965, DE DJ-1/PfpI family, score 1.9e-13 257310011338 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 257310011339 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 257310011340 Sulfate transporter family; Region: Sulfate_transp; pfam00916 257310011341 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 257310011342 HMMPfam hit to PF01740, DE STAS domain, score 4.7e-19 257310011343 HMMPfam hit to PF00916, DE Sulfate transporter family, score 7.5e-78 257310011344 10 probable transmembrane helices predicted for BB2339 by TMHMM2.0 at aa 35-54, 61-83, 111-133, 146-168, 188-207, 214-233, 261-283, 337-356, 360-377 and 398-420 257310011345 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 257310011346 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 257310011347 Beta-Casp domain; Region: Beta-Casp; smart01027 257310011348 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 257310011349 HMMPfam hit to PF00753, DE Metallo-beta-lactamase superfamily, score 0.0027 257310011350 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 257310011351 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 257310011352 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310011353 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310011354 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 3e-05 257310011355 PS00041 Bacterial regulatory proteins, araC family signature. 257310011356 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 3e-06 257310011357 Predicted helix-turn-helix motif with score 1463.000, SD 4.17 at aa 207-228, sequence LSMAQLADVAHTSPYHLNRLFA 257310011358 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310011359 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.8e-67 257310011360 PS00120 Lipases, serine active site. 257310011361 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 257310011362 Amidohydrolase; Region: Amidohydro_2; pfam04909 257310011363 Signal peptide predicted for BB2344 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.971 between residues 22 and 23; signal peptide 257310011364 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310011365 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7e-105 257310011366 Signal peptide predicted for BB2345 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.883 between residues 30 and 31; signal peptide 257310011367 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310011368 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.6e-113 257310011369 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310011370 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310011371 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 8.5e-64 257310011372 thiolase; Provisional; Region: PRK06158 257310011373 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310011374 active site 257310011375 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 257310011376 DUF35 OB-fold domain; Region: DUF35; pfam01796 257310011377 HMMPfam hit to PF01796, DE Domain of unknown function DUF35, score 3.6e-14 257310011378 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 257310011379 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 257310011380 active site 257310011381 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 257310011382 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 1.7e-52 257310011383 succinic semialdehyde dehydrogenase; Region: PLN02278 257310011384 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 257310011385 tetramerization interface [polypeptide binding]; other site 257310011386 NAD(P) binding site [chemical binding]; other site 257310011387 catalytic residues [active] 257310011388 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 3.8e-192 257310011389 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310011390 PS00070 Aldehyde dehydrogenases cysteine active site. 257310011391 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 257310011392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310011393 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 257310011394 substrate binding pocket [chemical binding]; other site 257310011395 dimerization interface [polypeptide binding]; other site 257310011396 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 8.1e-23 257310011397 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.2e-15 257310011398 PS00044 Bacterial regulatory proteins, lysR family signature. 257310011399 Predicted helix-turn-helix motif with score 1637.000, SD 4.76 at aa 40-61, sequence RSVSRTADRLDVSQPAVSHALA 257310011400 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 257310011401 Amidohydrolase; Region: Amidohydro_2; pfam04909 257310011402 Signal peptide predicted for BB2354 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.775 between residues 27 and 28; signal peptide 257310011403 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310011404 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.3e-97 257310011405 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 257310011406 Predicted membrane protein [Function unknown]; Region: COG1289 257310011407 10 probable transmembrane helices predicted for BB2355 by TMHMM2.0 at aa 21-43, 47-69, 76-98, 102-124, 129-151, 192-214, 221-238, 253-275, 282-304 and 319-338 257310011408 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310011409 ortholog of Bordetella pertussis (BX470248) BP2599; GntR-family transcriptional regulator (pseudogene) 257310011410 PS00136 Serine proteases, subtilase family, aspartic acid active site. 257310011411 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 5.7e-11 257310011412 PS00043 Bacterial regulatory proteins, gntR family signature. 257310011413 Predicted helix-turn-helix motif with score 1295.000, SD 3.60 at aa 41-62, sequence PSTRALAAELGVSRTTVTAVYE 257310011414 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 257310011415 Signal peptide predicted for BB2358 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.905 between residues 22 and 23; signal peptide 257310011416 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 257310011417 6 probable transmembrane helices predicted for BB2358 by TMHMM2.0 at aa 4-26, 39-61, 71-90, 111-133, 143-165 and 181-200 257310011418 HMMPfam hit to PF01810, DE LysE type translocator, score 2.5e-07 257310011419 Uncharacterized conserved protein [Function unknown]; Region: COG5649 257310011420 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 257310011421 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 257310011422 metal binding site [ion binding]; metal-binding site 257310011423 dimer interface [polypeptide binding]; other site 257310011424 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 1.5e-60 257310011425 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 257310011426 Signal peptide predicted for BB2361 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.916 between residues 27 and 28; signal peptide 257310011427 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 257310011428 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 4.7e-72 257310011429 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310011430 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310011431 Signal peptide predicted for BB2362 by SignalP 2.0 HMM (Signal peptide probabilty 0.903) with cleavage site probability 0.836 between residues 29 and 30; signal peptide 257310011432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310011433 dimer interface [polypeptide binding]; other site 257310011434 conserved gate region; other site 257310011435 putative PBP binding loops; other site 257310011436 ABC-ATPase subunit interface; other site 257310011437 6 probable transmembrane helices predicted for BB2362 by TMHMM2.0 at aa 9-31, 100-122, 135-157, 172-194, 235-257 and 285-307 257310011438 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.9e-06 257310011439 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310011440 Signal peptide predicted for BB2363 by SignalP 2.0 HMM (Signal peptide probabilty 0.927) with cleavage site probability 0.886 between residues 19 and 20; signal peptide 257310011441 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 257310011442 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 257310011443 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310011444 dimer interface [polypeptide binding]; other site 257310011445 conserved gate region; other site 257310011446 putative PBP binding loops; other site 257310011447 ABC-ATPase subunit interface; other site 257310011448 6 probable transmembrane helices predicted for BB2363 by TMHMM2.0 at aa 2-24, 69-91, 98-120, 130-147, 188-210 and 230-252 257310011449 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.0062 257310011450 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 257310011451 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310011452 Walker A/P-loop; other site 257310011453 ATP binding site [chemical binding]; other site 257310011454 Q-loop/lid; other site 257310011455 ABC transporter signature motif; other site 257310011456 Walker B; other site 257310011457 D-loop; other site 257310011458 H-loop/switch region; other site 257310011459 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310011460 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310011461 Walker A/P-loop; other site 257310011462 ATP binding site [chemical binding]; other site 257310011463 Q-loop/lid; other site 257310011464 ABC transporter signature motif; other site 257310011465 Walker B; other site 257310011466 D-loop; other site 257310011467 H-loop/switch region; other site 257310011468 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310011469 HMMPfam hit to PF00005, DE ABC transporter score 1.9e-57 257310011470 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011471 PS00211 ABC transporters family signature. 257310011472 HMMPfam hit to PF00005, DE ABC transporter score 3.2e-63 257310011473 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011474 PS00211 ABC transporters family signature. 257310011475 Transcriptional regulators [Transcription]; Region: PurR; COG1609 257310011476 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257310011477 DNA binding site [nucleotide binding] 257310011478 domain linker motif; other site 257310011479 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 257310011480 dimerization interface [polypeptide binding]; other site 257310011481 ligand binding site [chemical binding]; other site 257310011482 HMMPfam hit to PF00356, DE Bacterial regulatory proteins, lacI family, score 2.1e-05 257310011483 Predicted helix-turn-helix motif with score 1590.000, SD 4.60 at aa 12-33, sequence VKIVDVAKAANVSPAVVSRILS 257310011484 HMMPfam hit to PF00532, DE Periplasmic binding proteins and sugar binding domain of the LacI family, score 6.7e-23 257310011485 Predicted helix-turn-helix motif with score 1283.000, SD 3.56 at aa 82-103, sequence VGLTDVAQIVGVSRQNMRKLML 257310011486 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 257310011487 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 257310011488 DNA binding residues [nucleotide binding] 257310011489 putative dimer interface [polypeptide binding]; other site 257310011490 putative metal binding residues [ion binding]; other site 257310011491 HMMPfam hit to PF00376, DE Bacterial regulatory proteins, merR family, score 9.4e-07 257310011492 Predicted helix-turn-helix motif with score 1587.000, SD 4.59 at aa 12-33, sequence MDIAEVARRTGVPASTLRYYDK 257310011493 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 257310011494 4 probable transmembrane helices predicted for BB2368 by TMHMM2.0 at aa 7-28, 69-91, 104-126 and 141-163 257310011495 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310011496 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310011497 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.5e-60 257310011498 enoyl-CoA hydratase; Region: PLN02864 257310011499 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 257310011500 dimer interaction site [polypeptide binding]; other site 257310011501 substrate-binding tunnel; other site 257310011502 active site 257310011503 catalytic site [active] 257310011504 substrate binding site [chemical binding]; other site 257310011505 HMMPfam hit to PF01575, DE MaoC like domain, score 1.5e-11 257310011506 Signal peptide predicted for BB2371 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.848 between residues 23 and 24; signal peptide 257310011507 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310011508 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.1e-110 257310011509 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310011510 DNA-binding site [nucleotide binding]; DNA binding site 257310011511 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310011512 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 257310011513 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 3.6e-19 257310011514 Signal peptide predicted for BB2373 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 26 and 27; signal peptide 257310011515 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310011516 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 9e-114 257310011517 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 257310011518 HMMPfam hit to PF02615, DE Malate/L-lactate dehydrogenase, score 8.9e-51 257310011519 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310011520 hydroxyglutarate oxidase; Provisional; Region: PRK11728 257310011521 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 0.0092 257310011522 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 257310011523 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 257310011524 HMMPfam hit to PF01089, DE Delta 1-pyrroline-5-carboxylate reductase, score 8.6e-54 257310011525 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310011526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310011527 DNA-binding site [nucleotide binding]; DNA binding site 257310011528 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 257310011529 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 2.7e-12 257310011530 Predicted helix-turn-helix motif with score 1446.000, SD 4.11 at aa 35-56, sequence LKQEVLAKRFGVSRIPVREALK 257310011531 Bacteriophage protein GP30.3; Region: Phage_30_3; cl17603 257310011532 Signal peptide predicted for BB2379 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.629 between residues 22 and 23; signal peptide 257310011533 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 257310011534 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 9e-33 257310011535 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 6.3e-22 257310011536 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310011537 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 257310011538 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 257310011539 5 probable transmembrane helices predicted for BB2380 by TMHMM2.0 at aa 180-202, 223-245, 260-282, 289-311 and 346-368 257310011540 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 257310011541 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 257310011542 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 257310011543 6 probable transmembrane helices predicted for BB2381 by TMHMM2.0 at aa 30-52, 185-207, 228-250, 263-285, 292-314 and 351-370 257310011544 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 257310011545 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 257310011546 Walker A/P-loop; other site 257310011547 ATP binding site [chemical binding]; other site 257310011548 Q-loop/lid; other site 257310011549 ABC transporter signature motif; other site 257310011550 Walker B; other site 257310011551 D-loop; other site 257310011552 H-loop/switch region; other site 257310011553 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 257310011554 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310011555 Walker A/P-loop; other site 257310011556 ATP binding site [chemical binding]; other site 257310011557 Q-loop/lid; other site 257310011558 ABC transporter signature motif; other site 257310011559 Walker B; other site 257310011560 D-loop; other site 257310011561 H-loop/switch region; other site 257310011562 HMMPfam hit to PF00005, DE ABC transporter score 2.3e-54 257310011563 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011564 HMMPfam hit to PF00005, DE ABC transporter score 2.5e-57 257310011565 PS00211 ABC transporters family signature. 257310011566 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011567 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 257310011568 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310011569 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310011570 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310011571 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 257310011572 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 4.8e-11 257310011573 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 257310011574 putative active site [active] 257310011575 putative metal binding site [ion binding]; other site 257310011576 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 257310011577 PS00626 Regulator of chromosome condensation (RCC1) signature 2. 257310011578 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 257310011579 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257310011580 active site 257310011581 catalytic tetrad [active] 257310011582 HMMPfam hit to PF00248, DE Aldo/keto reductase family, score 6e-64 257310011583 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 257310011584 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 257310011585 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310011586 Walker A motif; other site 257310011587 ATP binding site [chemical binding]; other site 257310011588 Walker B motif; other site 257310011589 arginine finger; other site 257310011590 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 257310011591 HMMPfam hit to PF02954, DE Bacterial regulatory protein, Fis family, score 3.5e-10 257310011592 Predicted helix-turn-helix motif with score 1941.000, SD 5.80 at aa 597-618, sequence GNIAGAAHELGIHRSTLYRHLA 257310011593 HMMPfam hit to PF00158, DE Sigma-54 interaction domain, score 5.1e-86 257310011594 PS00675 Sigma-54 interaction domain ATP-binding region A signature. 257310011595 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 257310011596 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310011597 NAD(P) binding site [chemical binding]; other site 257310011598 catalytic residues [active] 257310011599 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 1.9e-227 257310011600 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310011601 PS00070 Aldehyde dehydrogenases cysteine active site. 257310011602 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 257310011603 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 257310011604 HMMPfam hit to PF02525, DE Flavodoxin-like fold, score 2.6e-06 257310011605 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310011606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310011607 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310011608 dimerization interface [polypeptide binding]; other site 257310011609 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1e-21 257310011610 Predicted helix-turn-helix motif with score 1608.000, SD 4.66 at aa 20-41, sequence LSFKGAAAELHVTPTAVSHQIR 257310011611 PS00044 Bacterial regulatory proteins, lysR family signature. 257310011612 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 4.1e-25 257310011613 Signal peptide predicted for BB2391 by SignalP 2.0 HMM (Signal peptide probabilty 0.964) with cleavage site probability 0.379 between residues 43 and 44; signal peptide 257310011614 Predicted membrane protein [Function unknown]; Region: COG2733 257310011615 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 257310011616 Signal peptide predicted for BB2392 by SignalP 2.0 HMM (Signal peptide probabilty 0.880) with cleavage site probability 0.495 between residues 26 and 27; signal peptide 257310011617 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310011618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310011619 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310011620 dimerization interface [polypeptide binding]; other site 257310011621 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.2e-20 257310011622 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.2e-16 257310011623 PS00044 Bacterial regulatory proteins, lysR family signature. 257310011624 Predicted helix-turn-helix motif with score 1825.000, SD 5.40 at aa 20-41, sequence GSLTAAAALLHLTQGAVSQQLQ 257310011625 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 257310011626 HMMPfam hit to PF02567, DE Phenazine biosynthesis-like protein, score 2.7e-41 257310011627 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 257310011628 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 257310011629 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 257310011630 conserved cys residue [active] 257310011631 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310011632 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310011633 HMMPfam hit to PF01965, DE DJ-1/PfpI family, score 0.012 257310011634 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 3.1e-05 257310011635 Predicted helix-turn-helix motif with score 1340.000, SD 3.75 at aa 257-278, sequence LTVEQLAQRVALGRRTLERRFR 257310011636 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.00026 257310011637 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 257310011638 Signal peptide predicted for BB2398 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 43 and 44; signal peptide 257310011639 Domain of unknown function DUF302; Region: DUF302; cl01364 257310011640 HMMPfam hit to PF03625, DE Domain of unknown function DUF302, score 7.1e-26 257310011641 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310011642 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 2.9e-10 257310011643 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310011644 dimerization interface [polypeptide binding]; other site 257310011645 putative DNA binding site [nucleotide binding]; other site 257310011646 putative Zn2+ binding site [ion binding]; other site 257310011647 HMMPfam hit to PF01022, DE Bacterial regulatory protein, arsR family, score 2.1e-13 257310011648 Predicted helix-turn-helix motif with score 1024.000, SD 2.67 at aa 33-54, sequence HNIRALAAPFAMSFTAASKHLK 257310011649 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 257310011650 putative hydrophobic ligand binding site [chemical binding]; other site 257310011651 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 257310011652 putative transporter; Provisional; Region: PRK11660 257310011653 Sulfate transporter family; Region: Sulfate_transp; pfam00916 257310011654 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 257310011655 HMMPfam hit to PF01740, DE STAS domain, score 2.2e-20 257310011656 HMMPfam hit to PF00916, DE Sulfate transporter family, score 1.4e-89 257310011657 10 probable transmembrane helices predicted for BB2402 by TMHMM2.0 at aa 32-54, 61-83, 98-120, 127-149, 180-197, 259-281, 296-318, 330-352, 356-378 and 391-413 257310011658 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310011659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310011660 DNA-binding site [nucleotide binding]; DNA binding site 257310011661 FCD domain; Region: FCD; pfam07729 257310011662 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 4.7e-08 257310011663 Signal peptide predicted for BB2404 by SignalP 2.0 HMM (Signal peptide probabilty 0.976) with cleavage site probability 0.707 between residues 23 and 24; signal peptide 257310011664 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310011665 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 257310011666 ZIP Zinc transporter; Region: Zip; pfam02535 257310011667 8 probable transmembrane helices predicted for BB2405 by TMHMM2.0 at aa 21-43, 58-80, 92-114, 124-146, 167-189, 226-248, 255-274 and 289-308 257310011668 HMMPfam hit to PF02535, DE ZIP Zinc transporter score 2e-29 257310011669 Signal peptide predicted for BB2406 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.979 between residues 42 and 43; signal peptide 257310011670 2 probable transmembrane helices predicted for BB2406 by TMHMM2.0 at aa 24-46 and 66-85 257310011671 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310011672 Signal peptide predicted for BB2407 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 29 and 30; signal peptide 257310011673 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257310011674 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257310011675 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310011676 Walker A/P-loop; other site 257310011677 ATP binding site [chemical binding]; other site 257310011678 Q-loop/lid; other site 257310011679 ABC transporter signature motif; other site 257310011680 Walker B; other site 257310011681 D-loop; other site 257310011682 H-loop/switch region; other site 257310011683 HMMPfam hit to PF00005, DE ABC transporter score 2.9e-54 257310011684 PS00211 ABC transporters family signature. 257310011685 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011686 6 probable transmembrane helices predicted for BB2407 by TMHMM2.0 at aa 12-34, 54-76, 133-155, 160-182, 247-269 and 279-301 257310011687 HMMPfam hit to PF00664, DE ABC transporter transmembrane region, score 9.7e-11 257310011688 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011689 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 257310011690 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310011691 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 257310011692 Coenzyme A binding pocket [chemical binding]; other site 257310011693 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 3.4e-13 257310011694 1 probable transmembrane helix predicted for BB2409 by TMHMM2.0 at aa 21-43 257310011695 Uncharacterized conserved protein [Function unknown]; Region: COG3791 257310011696 Signal peptide predicted for BB2411 by SignalP 2.0 HMM (Signal peptide probabilty 0.777) with cleavage site probability 0.512 between residues 33 and 34; signal peptide 257310011697 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310011698 putative substrate translocation pore; other site 257310011699 14 probable transmembrane helices predicted for BB2411 by TMHMM2.0 at aa 12-34, 49-68, 80-102, 107-129, 141-163, 168-190, 202-220, 225-247, 268-290, 300-322, 329-351, 364-386, 399-421 and 441-463 257310011700 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310011701 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 257310011702 dimer interface [polypeptide binding]; other site 257310011703 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 257310011704 HMMPfam hit to PF02190, DE ATP-dependent protease La (LON) domain, score 0.014 257310011705 Predicted helix-turn-helix motif with score 1279.000, SD 3.54 at aa 131-152, sequence LTRQTLARQARLSSATLGQIEK 257310011706 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 257310011707 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 257310011708 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310011709 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.71 257310011710 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 2.6e-07 257310011711 PS00041 Bacterial regulatory proteins, araC family signature. 257310011712 Predicted helix-turn-helix motif with score 1390.000, SD 3.92 at aa 216-237, sequence LRVEHLATTVNMSVSSLHHHFK 257310011713 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 257310011714 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 257310011715 XdhC Rossmann domain; Region: XdhC_C; pfam13478 257310011716 HMMPfam hit to PF02625, DE Uncharacterized BCR, COG1975, score 2e-22 257310011717 Signal peptide predicted for BB2417 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.980 between residues 35 and 36; signal peptide 257310011718 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310011719 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 257310011720 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 257310011721 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310011722 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 257310011723 HMMPfam hit to PF02738, DE Aldehyde oxidase and xanthine dehydrogenase, molybdopterin binding domain, score 6.3e-08 257310011724 HMMPfam hit to PF01315, DE Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain, score 0.00062 257310011725 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 257310011726 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310011727 catalytic loop [active] 257310011728 iron binding site [ion binding]; other site 257310011729 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 257310011730 HMMPfam hit to PF01799, DE [2Fe-2S] binding domain, score 4.5e-34 257310011731 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 6.4e-09 257310011732 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310011733 Signal peptide predicted for BB2419 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.728 between residues 31 and 32; signal peptide 257310011734 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 257310011735 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310011736 LysR family transcriptional regulator; Provisional; Region: PRK14997 257310011737 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 257310011738 putative effector binding pocket; other site 257310011739 putative dimerization interface [polypeptide binding]; other site 257310011740 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.9e-11 257310011741 Predicted helix-turn-helix motif with score 1663.000, SD 4.85 at aa 5-26, sequence RSFAAAGRRLGLSASTVTRAVA 257310011742 PS00044 Bacterial regulatory proteins, lysR family signature. 257310011743 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 8.1e-37 257310011744 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 257310011745 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 257310011746 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 257310011747 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 257310011748 HMMPfam hit to PF00793, DE DAHP synthetase I family, score 3.8e-149 257310011749 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 257310011750 HMMPfam hit to PF01810, DE LysE type translocator, score 8.5e-08 257310011751 5 probable transmembrane helices predicted for BB2423 by TMHMM2.0 at aa 10-32, 44-66, 70-92, 117-139 and 162-184 257310011752 glutathione reductase; Validated; Region: PRK06116 257310011753 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257310011754 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310011755 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 257310011756 HMMPfam hit to PF02852, DE Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain, score 3.4e-46 257310011757 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 1.4e-91 257310011758 PS00076 Pyridine nucleotide-disulphide oxidoreductases class-I active site. 257310011759 3 probable transmembrane helices predicted for BB2425 by TMHMM2.0 at aa 7-29, 49-71 and 78-97 257310011760 Signal peptide predicted for BB2426 by SignalP 2.0 HMM (Signal peptide probabilty 0.658) with cleavage site probability 0.338 between residues 24 and 25; signal peptide 257310011761 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 257310011762 3 probable transmembrane helices predicted for BB2426 by TMHMM2.0 at aa 10-29, 34-56 and 93-115 257310011763 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 257310011764 C-terminal domain interface [polypeptide binding]; other site 257310011765 GSH binding site (G-site) [chemical binding]; other site 257310011766 dimer interface [polypeptide binding]; other site 257310011767 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 257310011768 N-terminal domain interface [polypeptide binding]; other site 257310011769 putative dimer interface [polypeptide binding]; other site 257310011770 active site 257310011771 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 1.5e-10 257310011772 HMMPfam hit to PF00043, DE Glutathione S-transferase, C-terminal domain, score 9.1e-10 257310011773 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 257310011774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310011775 DNA-binding site [nucleotide binding]; DNA binding site 257310011776 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310011777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310011778 homodimer interface [polypeptide binding]; other site 257310011779 catalytic residue [active] 257310011780 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.5e-09 257310011781 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 257310011782 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 257310011783 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 0.00034 257310011784 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310011785 EamA-like transporter family; Region: EamA; pfam00892 257310011786 EamA-like transporter family; Region: EamA; pfam00892 257310011787 10 probable transmembrane helices predicted for BB2430 by TMHMM2.0 at aa 13-33, 43-62, 74-96, 101-123, 130-148, 158-180, 193-215, 220-242, 249-271 and 281-300 257310011788 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 2.5e-17 257310011789 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 1.5e-13 257310011790 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 257310011791 catalytic residues [active] 257310011792 PS00194 Thioredoxin family active site. 257310011793 allantoate amidohydrolase; Reviewed; Region: PRK12890 257310011794 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 257310011795 active site 257310011796 metal binding site [ion binding]; metal-binding site 257310011797 dimer interface [polypeptide binding]; other site 257310011798 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 3.4e-07 257310011799 Signal peptide predicted for BB2433 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.387 between residues 51 and 52; signal peptide 257310011800 multidrug efflux protein; Reviewed; Region: PRK01766 257310011801 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 257310011802 cation binding site [ion binding]; other site 257310011803 12 probable transmembrane helices predicted for BB2433 by TMHMM2.0 at aa 20-42, 57-79, 100-122, 137-159, 166-188, 198-220, 250-272, 282-304, 325-347, 362-379, 400-422 and 427-449 257310011804 HMMPfam hit to PF01554, DE Uncharacterized membrane protein family UPF0013, score 2e-35 257310011805 HMMPfam hit to PF01554, DE Uncharacterized membrane protein family UPF0013, score 1.2e-26 257310011806 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 257310011807 active site 257310011808 substrate-binding site [chemical binding]; other site 257310011809 metal-binding site [ion binding] 257310011810 GTP binding site [chemical binding]; other site 257310011811 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00821, DE Phosphoenolpyruvate carboxykinase, score 0 257310011812 PS00505 Phosphoenolpyruvate carboxykinase (GTP) signature. 257310011813 Methyltransferase domain; Region: Methyltransf_23; pfam13489 257310011814 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310011815 S-adenosylmethionine binding site [chemical binding]; other site 257310011816 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 257310011817 putative active site [active] 257310011818 Signal peptide predicted for BB2437 by SignalP 2.0 HMM (Signal peptide probabilty 0.947) with cleavage site probability 0.898 between residues 15 and 16; signal peptide 257310011819 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 257310011820 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310011821 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 257310011822 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310011823 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 1.5e-18 257310011824 HMMPfam hit to PF02737, DE 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain, score 5.9e-32 257310011825 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310011826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310011827 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310011828 putative dimerization interface [polypeptide binding]; other site 257310011829 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.5e-18 257310011830 Predicted helix-turn-helix motif with score 1367.000, SD 3.84 at aa 20-41, sequence LNFRQAAAQLHLSQSALSTQVL 257310011831 PS00044 Bacterial regulatory proteins, lysR family signature. 257310011832 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 4.4e-47 257310011833 Signal peptide predicted for BB2440 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.849 between residues 24 and 25; signal peptide 257310011834 DctM-like transporters; Region: DctM; pfam06808 257310011835 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310011836 10 probable transmembrane helices predicted for BB2440 by TMHMM2.0 at aa 12-34, 54-73, 94-116, 143-165, 174-196, 225-259, 280-302, 317-351, 358-380 and 410-429 257310011837 HMMPfam hit to PF00597, DE DedA family, score 0.0052 257310011838 Signal peptide predicted for BB2441 by SignalP 2.0 HMM (Signal peptide probabilty 0.982) with cleavage site probability 0.885 between residues 29 and 30; signal peptide 257310011839 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310011840 4 probable transmembrane helices predicted for BB2441 by TMHMM2.0 at aa 9-31, 41-63, 90-107 and 122-144 257310011841 Signal peptide predicted for BB2442 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.983 between residues 23 and 24; signal peptide 257310011842 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310011843 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310011844 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 2.4e-19 257310011845 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 257310011846 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 257310011847 putative NAD(P) binding site [chemical binding]; other site 257310011848 active site 257310011849 putative substrate binding site [chemical binding]; other site 257310011850 Signal peptide predicted for BB2444 by SignalP 2.0 HMM (Signal peptide probabilty 0.867) with cleavage site probability 0.708 between residues 23 and 24; signal peptide 257310011851 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 257310011852 Signal peptide predicted for BB2445 by SignalP 2.0 HMM (Signal peptide probabilty 0.715) with cleavage site probability 0.695 between residues 23 and 24; signal peptide 257310011853 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 257310011854 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257310011855 HMMPfam hit to PF03446, DE NAD binding domain of 6-phosphogluconate dehydrogenase, score 0.00021 257310011856 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 257310011857 HMMPfam hit to PF00920, DE Dehydratase family, score 2e-241 257310011858 PS00887 Dihydroxy-acid and 6-phosphogluconate dehydratases signature 2. 257310011859 PS00886 Dihydroxy-acid and 6-phosphogluconate dehydratases signature 1. 257310011860 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310011861 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310011862 DNA-binding site [nucleotide binding]; DNA binding site 257310011863 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 257310011864 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310011865 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 0.00024 257310011866 Predicted helix-turn-helix motif with score 1427.000, SD 4.05 at aa 38-59, sequence LGIQELADAFGTSAMPVREALR 257310011867 Signal peptide predicted for BB2448 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.996 between residues 26 and 27; signal peptide 257310011868 Uncharacterized conserved protein [Function unknown]; Region: COG5361 257310011869 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 257310011870 Signal peptide predicted for BB2449 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 22 and 23; signal peptide 257310011871 Uncharacterized conserved protein [Function unknown]; Region: COG5361 257310011872 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 257310011873 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 257310011874 Helix-turn-helix domain; Region: HTH_18; pfam12833 257310011875 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310011876 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 257310011877 DNA-binding site [nucleotide binding]; DNA binding site 257310011878 FCD domain; Region: FCD; pfam07729 257310011879 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 4e-08 257310011880 PS00043 Bacterial regulatory proteins, gntR family signature. 257310011881 Predicted helix-turn-helix motif with score 988.000, SD 2.55 at aa 40-61, sequence LTEDELMARFGLKRHAVRQVLA 257310011882 dihydroxy-acid dehydratase; Validated; Region: PRK06131 257310011883 HMMPfam hit to PF00920, DE Dehydratase family, score 5.4e-190 257310011884 PS00886 Dihydroxy-acid and 6-phosphogluconate dehydratases signature 1. 257310011885 Signal peptide predicted for BB2453 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.485 between residues 31 and 32; signal peptide 257310011886 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310011887 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-116 257310011888 choline dehydrogenase; Validated; Region: PRK02106 257310011889 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 257310011890 HMMPfam hit to PF00732, DE GMC oxidoreductase, score 1.7e-180 257310011891 PS00624 GMC oxidoreductases signature 2. 257310011892 PS00623 GMC oxidoreductases signature 1. 257310011893 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310011894 Signal peptide predicted for BB2455 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.887 between residues 30 and 31; signal peptide 257310011895 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 257310011896 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310011897 substrate binding pocket [chemical binding]; other site 257310011898 membrane-bound complex binding site; other site 257310011899 hinge residues; other site 257310011900 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310011901 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310011902 Walker A/P-loop; other site 257310011903 ATP binding site [chemical binding]; other site 257310011904 Q-loop/lid; other site 257310011905 ABC transporter signature motif; other site 257310011906 Walker B; other site 257310011907 D-loop; other site 257310011908 H-loop/switch region; other site 257310011909 HMMPfam hit to PF00005, DE ABC transporter score 2.3e-56 257310011910 PS00211 ABC transporters family signature. 257310011911 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011912 Signal peptide predicted for BB2457 by SignalP 2.0 HMM (Signal peptide probabilty 0.899) with cleavage site probability 0.228 between residues 31 and 32; signal peptide 257310011913 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310011914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310011915 dimer interface [polypeptide binding]; other site 257310011916 conserved gate region; other site 257310011917 putative PBP binding loops; other site 257310011918 ABC-ATPase subunit interface; other site 257310011919 6 probable transmembrane helices predicted for BB2457 by TMHMM2.0 at aa 5-27, 65-87, 99-121, 126-148, 185-207 and 222-244 257310011920 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4.8e-12 257310011921 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310011922 PS00038 Myc-type, 'helix-loop-helix' dimerization domain signature. 257310011923 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 257310011924 catalytic site [active] 257310011925 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310011926 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310011927 DNA-binding site [nucleotide binding]; DNA binding site 257310011928 UTRA domain; Region: UTRA; pfam07702 257310011929 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 8.6e-18 257310011930 Predicted helix-turn-helix motif with score 1250.000, SD 3.44 at aa 36-57, sequence PSLEELVAEFGVARVTVRQAID 257310011931 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 257310011932 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 257310011933 active site pocket [active] 257310011934 HMMPfam hit to PF02746, DE Mandelate racemase / muconate lactonizing enzyme, N-terminal domain, score 4.6e-13 257310011935 HMMPfam hit to PF01188, DE Mandelate racemase / muconate lactonizing enzyme, C-terminal domain, score 7.8e-11 257310011936 PS00909 Mandelate racemase / muconate lactonizing enzyme family signature 2. 257310011937 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310011938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310011939 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 257310011940 putative effector binding pocket; other site 257310011941 putative dimerization interface [polypeptide binding]; other site 257310011942 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.3e-46 257310011943 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 6.4e-17 257310011944 PS00044 Bacterial regulatory proteins, lysR family signature. 257310011945 Predicted helix-turn-helix motif with score 1200.000, SD 3.27 at aa 17-38, sequence GSFSRAAAALDIPRATATHAIK 257310011946 short chain dehydrogenase; Provisional; Region: PRK12937 257310011947 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 257310011948 NADP binding site [chemical binding]; other site 257310011949 homodimer interface [polypeptide binding]; other site 257310011950 active site 257310011951 substrate binding site [chemical binding]; other site 257310011952 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.1e-65 257310011953 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 257310011954 HMMPfam hit to PF01435, DE Peptidase family M48, score 5.2e-05 257310011955 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 257310011956 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310011957 HMMPfam hit to PF00903, DE Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily, score 4.7e-12 257310011958 Signal peptide predicted for BB2464 by SignalP 2.0 HMM (Signal peptide probabilty 0.971) with cleavage site probability 0.415 between residues 31 and 32; signal peptide 257310011959 11 probable transmembrane helices predicted for BB2464 by TMHMM2.0 at aa 20-42, 47-69, 76-98, 103-125, 138-157, 167-189, 215-237, 252-271, 276-298, 308-330 and 343-365 257310011960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310011961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310011962 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 257310011963 putative dimerization interface [polypeptide binding]; other site 257310011964 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5.3e-41 257310011965 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.6e-18 257310011966 PS00044 Bacterial regulatory proteins, lysR family signature. 257310011967 Predicted helix-turn-helix motif with score 2346.000, SD 7.18 at aa 44-65, sequence GNLTEVANEYGISQPALSKWLK 257310011968 Sulfatase; Region: Sulfatase; cl17466 257310011969 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 257310011970 HMMPfam hit to PF00884, DE Sulfatase, score 7.9e-27 257310011971 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011972 Signal peptide predicted for BB2467 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.605 between residues 26 and 27; signal peptide 257310011973 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310011974 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.7e-80 257310011975 Signal peptide predicted for BB2468 by SignalP 2.0 HMM (Signal peptide probabilty 0.990) with cleavage site probability 0.348 between residues 31 and 32; signal peptide 257310011976 4 probable transmembrane helices predicted for BB2468 by TMHMM2.0 at aa 7-29, 68-90, 103-125 and 135-157 257310011977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 257310011978 HMMPfam hit to PF01970, DE Integral membrane protein DUF112, score 6.5e-116 257310011979 11 probable transmembrane helices predicted for BB2469 by TMHMM2.0 at aa 20-42, 47-69, 73-95, 108-130, 145-167, 169-191, 206-223, 317-339, 359-381, 388-410 and 464-486 257310011980 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310011981 MarR family; Region: MarR_2; pfam12802 257310011982 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 257310011983 HMMPfam hit to PF01850, DE PIN domain, score 2.8e-09 257310011984 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 257310011985 Cupin; Region: Cupin_6; pfam12852 257310011986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310011987 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257310011988 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.85 257310011989 PS00041 Bacterial regulatory proteins, araC family signature. 257310011990 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 8e-07 257310011991 PS00041 Bacterial regulatory proteins, araC family signature. 257310011992 Predicted helix-turn-helix motif with score 1446.000, SD 4.11 at aa 195-216, sequence WPLTRMADIAGMSRSAFAAAFK 257310011993 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 257310011994 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 257310011995 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 257310011996 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 257310011997 PS00017 ATP/GTP-binding site motif A (P-loop). 257310011998 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310011999 Protein of unknown function, DUF488; Region: DUF488; pfam04343 257310012000 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 257310012001 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 257310012002 Signal peptide predicted for BB2480 by SignalP 2.0 HMM (Signal peptide probabilty 0.952) with cleavage site probability 0.644 between residues 29 and 30; signal peptide 257310012003 DctM-like transporters; Region: DctM; pfam06808 257310012004 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310012005 11 probable transmembrane helices predicted for BB2480 by TMHMM2.0 at aa 5-27, 31-48, 55-77, 97-119, 140-162, 175-197, 224-246, 277-299, 320-342, 362-384 and 405-427 257310012006 Signal peptide predicted for BB2481 by SignalP 2.0 HMM (Signal peptide probabilty 0.714) with cleavage site probability 0.340 between residues 45 and 46; signal peptide 257310012007 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310012008 4 probable transmembrane helices predicted for BB2481 by TMHMM2.0 at aa 20-39, 54-73, 94-116 and 131-153 257310012009 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310012010 Signal peptide predicted for BB2482 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.987 between residues 23 and 24; signal peptide 257310012011 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310012012 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 2.7e-49 257310012013 Isochorismatase family; Region: Isochorismatase; pfam00857 257310012014 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 257310012015 catalytic triad [active] 257310012016 conserved cis-peptide bond; other site 257310012017 HMMPfam hit to PF00857, DE Isochorismatase family, score 4.1e-09 257310012018 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 257310012019 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 257310012020 ligand binding site [chemical binding]; other site 257310012021 flexible hinge region; other site 257310012022 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 257310012023 Predicted helix-turn-helix motif with score 1508.000, SD 4.32 at aa 218-239, sequence QTQDALATLLGVSRHAVNRELR 257310012024 HMMPfam hit to PF00027, DE Cyclic nucleotide-binding domain, score 0.042 257310012025 Signal peptide predicted for BB2485 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.485 between residues 24 and 25; signal peptide 257310012026 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310012027 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.2e-92 257310012028 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 257310012029 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 257310012030 active site 257310012031 catalytic site [active] 257310012032 Zn binding site [ion binding]; other site 257310012033 tetramer interface [polypeptide binding]; other site 257310012034 HMMPfam hit to PF01522, DE Polysaccharide deacetylase, score 2.1e-11 257310012035 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310012036 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 6e-19 257310012037 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257310012038 Amidase; Region: Amidase; cl11426 257310012039 HMMPfam hit to PF01425, DE Amidase, score 8.2e-67 257310012040 short chain dehydrogenase; Provisional; Region: PRK06057 257310012041 classical (c) SDRs; Region: SDR_c; cd05233 257310012042 NAD(P) binding site [chemical binding]; other site 257310012043 active site 257310012044 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 4.6e-72 257310012045 PS00061 Short-chain dehydrogenases/reductases family signature. 257310012046 Low %GC phage-related region. 257310012047 AIPR protein; Region: AIPR; pfam10592 257310012048 Similar to Xanthomonas campestris transposase SWALL:Q9Z3E4 (EMBL:U62552) (350 aa) fasta scores: E(): 3.5e-47, 50% id in 254 aa, and to Ralstonia solanacearum isrso14-transposase orfb protein SWALL:Q8XF72 (EMBL:AL646083) (275 aa) fasta scores: E(): 7e-52, 54.21% id in 249 aa; transposase (pseudogene) 257310012049 HMMPfam hit to PF00665, DE Integrase core domain, score 8.4e-31 257310012050 Signal peptide predicted for BB2491 by SignalP 2.0 HMM (Signal peptide probabilty 0.785) with cleavage site probability 0.784 between residues 23 and 24 257310012051 Transposase; Region: HTH_Tnp_1; pfam01527 257310012052 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01527, DE Transposase, score 4.9e-27 257310012053 Predicted helix-turn-helix motif with score 1304.000, SD 3.63 at aa 21-42, sequence AKVAELCRKYGISEATYYNWKV 257310012054 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310012055 non-specific DNA binding site [nucleotide binding]; other site 257310012056 salt bridge; other site 257310012057 sequence-specific DNA binding site [nucleotide binding]; other site 257310012058 Domain of unknown function (DUF955); Region: DUF955; cl01076 257310012059 HMMPfam hit to PF01381, DE Helix-turn-helix, score 8.5e-09 257310012060 Predicted helix-turn-helix motif with score 1764.000, SD 5.19 at aa 23-44, sequence LTQVQLASMVEVSPATISKWRS 257310012061 Uncharacterized conserved protein [Function unknown]; Region: COG5476 257310012062 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 257310012063 MlrC C-terminus; Region: MlrC_C; pfam07171 257310012064 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 257310012065 putative catalytic site [active] 257310012066 putative phosphate binding site [ion binding]; other site 257310012067 active site 257310012068 metal binding site A [ion binding]; metal-binding site 257310012069 DNA binding site [nucleotide binding] 257310012070 putative AP binding site [nucleotide binding]; other site 257310012071 putative metal binding site B [ion binding]; other site 257310012072 HMMPfam hit to PF03372, DE Endonuclease/Exonuclease/phosphatase family, score 7e-42 257310012073 PS00728 AP endonucleases family 1 signature 3. 257310012074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 257310012075 4 probable transmembrane helices predicted for BB2497 by TMHMM2.0 at aa 6-28, 49-71, 81-103 and 123-145 257310012076 NnrS protein; Region: NnrS; pfam05940 257310012077 10 probable transmembrane helices predicted for BB2498 by TMHMM2.0 at aa 32-54, 67-89, 109-131, 152-174, 184-206, 226-257, 272-294, 301-323, 338-357 and 364-386 257310012078 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 257310012079 apolar tunnel; other site 257310012080 heme binding site [chemical binding]; other site 257310012081 dimerization interface [polypeptide binding]; other site 257310012082 Rdx family; Region: Rdx; cl01407 257310012083 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310012084 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310012085 Walker A/P-loop; other site 257310012086 ATP binding site [chemical binding]; other site 257310012087 Q-loop/lid; other site 257310012088 ABC transporter signature motif; other site 257310012089 Walker B; other site 257310012090 D-loop; other site 257310012091 H-loop/switch region; other site 257310012092 HMMPfam hit to PF00005, DE ABC transporter score 1.1e-62 257310012093 PS00211 ABC transporters family signature. 257310012094 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012095 Signal peptide predicted for BB2502 by SignalP 2.0 HMM (Signal peptide probabilty 0.635) with cleavage site probability 0.379 between residues 38 and 39; signal peptide 257310012096 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 257310012097 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310012098 dimer interface [polypeptide binding]; other site 257310012099 conserved gate region; other site 257310012100 putative PBP binding loops; other site 257310012101 ABC-ATPase subunit interface; other site 257310012102 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.3e-17 257310012103 2 probable transmembrane helices predicted for BB2502 by TMHMM2.0 at aa 22-44 and 57-79 257310012104 Signal peptide predicted for BB2503 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.981 between residues 25 and 26; signal peptide 257310012105 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257310012106 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310012107 substrate binding pocket [chemical binding]; other site 257310012108 membrane-bound complex binding site; other site 257310012109 hinge residues; other site 257310012110 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 1.9e-82 257310012111 PS01039 Bacterial extracellular substrate-binding proteins, family 3 signature. 257310012112 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 257310012113 Heavy-metal-associated domain; Region: HMA; pfam00403 257310012114 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257310012115 5 probable transmembrane helices predicted for BB2504 by TMHMM2.0 at aa 175-197, 381-403, 418-440, 722-744 and 748-770 257310012116 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 1e-26 257310012117 PS01229 Hypothetical cof family signature 2. 257310012118 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012119 PS00154 E1-E2 ATPases phosphorylation site. 257310012120 HMMPfam hit to PF00122, DE E1-E2 ATPase, score 5.6e-97 257310012121 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 257310012122 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 257310012123 DNA binding residues [nucleotide binding] 257310012124 dimer interface [polypeptide binding]; other site 257310012125 putative metal binding site [ion binding]; other site 257310012126 Predicted helix-turn-helix motif with score 1885.000, SD 5.61 at aa 1-22, sequence MKIGELARTAGTTVETVRYYEK 257310012127 HMMPfam hit to PF00376, DE Bacterial regulatory proteins, merR family, score 1.8e-11 257310012128 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 257310012129 putative FMN binding site [chemical binding]; other site 257310012130 HMMPfam hit to PF00881, DE Nitroreductase family, score 3.7e-14 257310012131 argininosuccinate lyase; Provisional; Region: PRK00855 257310012132 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 257310012133 active sites [active] 257310012134 tetramer interface [polypeptide binding]; other site 257310012135 HMMPfam hit to PF00206, DE Lyase, score 5.1e-112 257310012136 PS00163 Fumarate lyases signature. 257310012137 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 257310012138 Domain of unknown function (DUF4134); Region: DUF4134; pfam13572 257310012139 Mechanosensitive ion channel; Region: MS_channel; pfam00924 257310012140 5 probable transmembrane helices predicted for BB2508 by TMHMM2.0 at aa 20-42, 76-93, 108-125, 142-164 and 169-186 257310012141 HMMPfam hit to PF00924, DE Mechanosensitive ion channel, score 4.6e-25 257310012142 NAD synthetase; Provisional; Region: PRK13981 257310012143 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 257310012144 multimer interface [polypeptide binding]; other site 257310012145 active site 257310012146 catalytic triad [active] 257310012147 protein interface 1 [polypeptide binding]; other site 257310012148 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 257310012149 homodimer interface [polypeptide binding]; other site 257310012150 NAD binding pocket [chemical binding]; other site 257310012151 ATP binding pocket [chemical binding]; other site 257310012152 Mg binding site [ion binding]; other site 257310012153 active-site loop [active] 257310012154 HMMPfam hit to PF00795, DE Carbon-nitrogen hydrolase, score 4.7e-12 257310012155 HMMPfam hit to PF02540, DE NAD synthase, score 3.3e-77 257310012156 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 257310012157 Nitrogen regulatory protein P-II; Region: P-II; smart00938 257310012158 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00543, DE Nitrogen regulatory protein P-II, score 6.7e-61 257310012159 PS00496 P-II protein urydylation site. 257310012160 PS00638 P-II protein C-terminal region signature. 257310012161 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 257310012162 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03013, DE Pyrimidine dimer DNA glycosylase, score 8.5e-24 257310012163 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 257310012164 RNA binding surface [nucleotide binding]; other site 257310012165 HMMPfam hit to PF01479, DE S4 domain, score 8e-13 257310012166 Signal peptide predicted for BB2513 by SignalP 2.0 HMM (Signal peptide probabilty 0.972) with cleavage site probability 0.408 between residues 29 and 30; signal peptide 257310012167 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 257310012168 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310012169 AAA domain; Region: AAA_17; pfam13207 257310012170 AAA domain; Region: AAA_18; pfam13238 257310012171 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012172 Signal peptide predicted for BB2515 by SignalP 2.0 HMM (Signal peptide probabilty 0.716) with cleavage site probability 0.571 between residues 22 and 23; signal peptide 257310012173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310012174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310012175 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310012176 dimerization interface [polypeptide binding]; other site 257310012177 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 8.5e-29 257310012178 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 5.8e-20 257310012179 PS00044 Bacterial regulatory proteins, lysR family signature. 257310012180 Predicted helix-turn-helix motif with score 1314.000, SD 3.66 at aa 17-38, sequence GTFSEAAEQVALTQAAVSFQMR 257310012181 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 257310012182 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 257310012183 HMMPfam hit to PF01019, DE Gamma-glutamyltranspeptidase, score 8e-171 257310012184 PS00678 Trp-Asp (WD) repeats signature. 257310012185 Signal peptide predicted for BB2517 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 25 and 26; signal peptide 257310012186 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 257310012187 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_5; cd08511 257310012188 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 2.1e-60 257310012189 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310012190 Signal peptide predicted for BB2518 by SignalP 2.0 HMM (Signal peptide probabilty 0.821) with cleavage site probability 0.559 between residues 25 and 26; signal peptide 257310012191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310012192 dimer interface [polypeptide binding]; other site 257310012193 conserved gate region; other site 257310012194 putative PBP binding loops; other site 257310012195 ABC-ATPase subunit interface; other site 257310012196 6 probable transmembrane helices predicted for BB2518 by TMHMM2.0 at aa 5-27, 100-122, 142-159, 174-196, 234-256 and 285-307 257310012197 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 3.8e-07 257310012198 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310012199 Signal peptide predicted for BB2519 by SignalP 2.0 HMM (Signal peptide probabilty 0.988) with cleavage site probability 0.824 between residues 43 and 44; signal peptide 257310012200 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 257310012201 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310012202 dimer interface [polypeptide binding]; other site 257310012203 conserved gate region; other site 257310012204 putative PBP binding loops; other site 257310012205 ABC-ATPase subunit interface; other site 257310012206 5 probable transmembrane helices predicted for BB2519 by TMHMM2.0 at aa 28-50, 96-118, 131-153, 213-235 and 256-278 257310012207 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310012208 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.3e-10 257310012209 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310012210 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 257310012211 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310012212 Walker A/P-loop; other site 257310012213 ATP binding site [chemical binding]; other site 257310012214 Q-loop/lid; other site 257310012215 ABC transporter signature motif; other site 257310012216 Walker B; other site 257310012217 D-loop; other site 257310012218 H-loop/switch region; other site 257310012219 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310012220 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310012221 Walker A/P-loop; other site 257310012222 ATP binding site [chemical binding]; other site 257310012223 Q-loop/lid; other site 257310012224 ABC transporter signature motif; other site 257310012225 Walker B; other site 257310012226 D-loop; other site 257310012227 H-loop/switch region; other site 257310012228 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310012229 HMMPfam hit to PF00005, DE ABC transporter score 1.4e-57 257310012230 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012231 PS00211 ABC transporters family signature. 257310012232 HMMPfam hit to PF00005, DE ABC transporter score 2.4e-58 257310012233 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012234 PS00211 ABC transporters family signature. 257310012235 Signal peptide predicted for BB2521 by SignalP 2.0 HMM (Signal peptide probabilty 0.955) with cleavage site probability 0.451 between residues 26 and 27; signal peptide 257310012236 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 257310012237 HMMPfam hit to PF01810, DE LysE type translocator, score 4.7e-05 257310012238 5 probable transmembrane helices predicted for BB2521 by TMHMM2.0 at aa 5-27, 40-62, 75-92, 120-142 and 152-174 257310012239 YaeQ protein; Region: YaeQ; pfam07152 257310012240 12 probable transmembrane helices predicted for BB2523 by TMHMM2.0 at aa 21-40, 50-72, 84-101, 105-122, 141-163, 168-190, 218-240, 250-272, 281-303, 307-329, 341-363 and 367-389 257310012241 Chorismate lyase; Region: Chor_lyase; cl01230 257310012242 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 257310012243 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 257310012244 RNA binding surface [nucleotide binding]; other site 257310012245 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 257310012246 active site 257310012247 HMMPfam hit to PF01479, DE S4 domain, score 0.00021 257310012248 HMMPfam hit to PF00849, DE RNA pseudouridylate synthase, score 6.5e-08 257310012249 transcriptional regulator; Provisional; Region: PRK10632 257310012250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310012251 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 257310012252 putative effector binding pocket; other site 257310012253 dimerization interface [polypeptide binding]; other site 257310012254 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 4.7e-39 257310012255 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.3e-18 257310012256 PS00044 Bacterial regulatory proteins, lysR family signature. 257310012257 Predicted helix-turn-helix motif with score 1328.000, SD 3.71 at aa 11-32, sequence LSFSRAAENLAIPKSTLSRQVA 257310012258 PS00063 Aldo/keto reductase family active site signature. 257310012259 Signal peptide predicted for BB2527 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.682 between residues 27 and 28; signal peptide 257310012260 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 257310012261 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257310012262 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310012263 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310012264 HMMPfam hit to PF00529, DE hemolysin D, score 8.5e-69 257310012265 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 257310012266 Signal peptide predicted for BB2528 by SignalP 2.0 HMM (Signal peptide probabilty 0.961) with cleavage site probability 0.721 between residues 34 and 35; signal peptide 257310012267 Protein export membrane protein; Region: SecD_SecF; cl14618 257310012268 HMMPfam hit to PF00873, DE AcrB/AcrD/AcrF family, score 0 257310012269 12 probable transmembrane helices predicted for BB2528 by TMHMM2.0 at aa 13-35, 337-359, 366-388, 392-414, 438-460, 470-492, 540-562, 869-891, 898-920, 925-947, 972-994 and 1004-1026 257310012270 Signal peptide predicted for BB2529 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.604 between residues 24 and 25; signal peptide 257310012271 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 257310012272 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310012273 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 1.1e-44 257310012274 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 3.3e-55 257310012275 Predicted membrane protein [Function unknown]; Region: COG2261 257310012276 2 probable transmembrane helices predicted for BB2530 by TMHMM2.0 at aa 2-24 and 34-53 257310012277 Signal peptide predicted for BB2531 by SignalP 2.0 HMM (Signal peptide probabilty 0.981) with cleavage site probability 0.737 between residues 41 and 42; signal peptide 257310012278 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 257310012279 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 257310012280 Cu(I) binding site [ion binding]; other site 257310012281 HMMPfam hit to PF02630, DE SCO1/SenC, score 1.4e-26 257310012282 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310012283 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 257310012284 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 257310012285 active site 257310012286 Zn binding site [ion binding]; other site 257310012287 HMMPfam hit to PF01432, DE Peptidase family M3, score 4.2e-154 257310012288 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 257310012289 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 257310012290 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 257310012291 homodimer interface [polypeptide binding]; other site 257310012292 NADP binding site [chemical binding]; other site 257310012293 substrate binding site [chemical binding]; other site 257310012294 HMMPfam hit to PF02882, DE Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain, score 3.5e-92 257310012295 PS00767 Tetrahydrofolate dehydrogenase/cyclohydrolase signature 2. 257310012296 HMMPfam hit to PF00763, DE Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain, score 5.5e-67 257310012297 PS00766 Tetrahydrofolate dehydrogenase/cyclohydrolase signature 1. 257310012298 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 257310012299 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310012300 active site 257310012301 phosphorylation site [posttranslational modification] 257310012302 intermolecular recognition site; other site 257310012303 dimerization interface [polypeptide binding]; other site 257310012304 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310012305 DNA binding residues [nucleotide binding] 257310012306 dimerization interface [polypeptide binding]; other site 257310012307 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 8.9e-20 257310012308 PS00622 Bacterial regulatory proteins, luxR family signature. 257310012309 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 6.6e-40 257310012310 PAS domain S-box; Region: sensory_box; TIGR00229 257310012311 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 257310012312 putative active site [active] 257310012313 heme pocket [chemical binding]; other site 257310012314 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 257310012315 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310012316 dimer interface [polypeptide binding]; other site 257310012317 phosphorylation site [posttranslational modification] 257310012318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310012319 ATP binding site [chemical binding]; other site 257310012320 Mg2+ binding site [ion binding]; other site 257310012321 G-X-G motif; other site 257310012322 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 1.6e-32 257310012323 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 1.3e-08 257310012324 HMMPfam hit to PF00785, DE PAC motif, score 4.2e-07 257310012325 HMMPfam hit to PF00989, DE PAS domain, score 6.7e-10 257310012326 2 probable transmembrane helices predicted for BB2535 by TMHMM2.0 at aa 24-46 and 67-89 257310012327 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 257310012328 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 257310012329 dimer interface [polypeptide binding]; other site 257310012330 TPP-binding site [chemical binding]; other site 257310012331 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 257310012332 HMMPfam hit to PF00456, DE Transketolase, thiamine diphosphate binding domain, score 5e-06 257310012333 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 257310012334 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 257310012335 E3 interaction surface; other site 257310012336 lipoyl attachment site [posttranslational modification]; other site 257310012337 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 257310012338 E3 interaction surface; other site 257310012339 lipoyl attachment site [posttranslational modification]; other site 257310012340 e3 binding domain; Region: E3_binding; pfam02817 257310012341 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 257310012342 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 1.4e-23 257310012343 PS00189 2-oxo acid dehydrogenases acyltransferase lipoyl binding site. 257310012344 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 1.7e-22 257310012345 PS00189 2-oxo acid dehydrogenases acyltransferase lipoyl binding site. 257310012346 HMMPfam hit to PF02817, DE e3 binding domain, score 2.3e-13 257310012347 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00198, DE 2-oxo acid dehydrogenases acyltransferase (catalytic domain), score 2.3e-122 257310012348 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 257310012349 E3 interaction surface; other site 257310012350 lipoyl attachment site [posttranslational modification]; other site 257310012351 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 257310012352 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257310012353 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310012354 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 257310012355 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 8.7e-24 257310012356 PS00189 2-oxo acid dehydrogenases acyltransferase lipoyl binding site. 257310012357 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 1.4e-83 257310012358 PS00076 Pyridine nucleotide-disulphide oxidoreductases class-I active site. 257310012359 HMMPfam hit to PF02852, DE Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain, score 1.2e-49 257310012360 flagellin; Validated; Region: PRK06819 257310012361 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 257310012362 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 257310012363 HMMPfam hit to PF00700, DE Bacterial flagellin C-terminus, score 7.9e-41 257310012364 HMMPfam hit to PF00669, DE Bacterial flagellin N-terminus, score 2.6e-78 257310012365 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 257310012366 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310012367 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 257310012368 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 257310012369 DNA binding residues [nucleotide binding] 257310012370 HMMPfam hit to PF00140, DE Sigma-70 factor, region 1.2, score 2.8e-59 257310012371 Predicted helix-turn-helix motif with score 1172.000, SD 3.18 at aa 196-217, sequence LNLKEIGAVLNVTEARVCQLRA 257310012372 PS00715 Sigma-70 factors family signature 1. 257310012373 transcriptional activator FlhD; Provisional; Region: PRK02909 257310012374 transcriptional activator FlhC; Provisional; Region: PRK12722 257310012375 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 257310012376 flagellar motor protein MotA; Validated; Region: PRK09110 257310012377 4 probable transmembrane helices predicted for BB2543 by TMHMM2.0 at aa 2-24, 28-50, 168-190 and 205-227 257310012378 PS01307 Flagellar motor protein motA family signature. 257310012379 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 257310012380 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 257310012381 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 257310012382 ligand binding site [chemical binding]; other site 257310012383 1 probable transmembrane helix predicted for BB2544 by TMHMM2.0 at aa 28-50 257310012384 HMMPfam hit to PF00691, DE OmpA family, score 7.9e-21 257310012385 Response regulator receiver domain; Region: Response_reg; pfam00072 257310012386 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310012387 active site 257310012388 phosphorylation site [posttranslational modification] 257310012389 intermolecular recognition site; other site 257310012390 dimerization interface [polypeptide binding]; other site 257310012391 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 7.6e-29 257310012392 chemotaxis protein CheA; Provisional; Region: PRK10547 257310012393 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 257310012394 putative binding surface; other site 257310012395 active site 257310012396 CheY binding; Region: CheY-binding; pfam09078 257310012397 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 257310012398 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310012399 ATP binding site [chemical binding]; other site 257310012400 Mg2+ binding site [ion binding]; other site 257310012401 G-X-G motif; other site 257310012402 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 257310012403 HMMPfam hit to PF01627, DE Hpt domain, score 2e-35 257310012404 PS00039 DEAD-box subfamily ATP-dependent helicases signature. 257310012405 HMMPfam hit to PF02895, DE Signal transducing histidine kinase, homodimeric domain, score 1.6e-22 257310012406 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 1.1e-25 257310012407 HMMPfam hit to PF01584, DE CheW-like domain, score 6.1e-32 257310012408 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 257310012409 putative CheA interaction surface; other site 257310012410 HMMPfam hit to PF01584, DE CheW-like domain, score 5.6e-49 257310012411 Signal peptide predicted for BB2548 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.658 between residues 29 and 30; signal peptide 257310012412 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 257310012413 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 257310012414 dimer interface [polypeptide binding]; other site 257310012415 ligand binding site [chemical binding]; other site 257310012416 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310012417 dimerization interface [polypeptide binding]; other site 257310012418 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 257310012419 dimer interface [polypeptide binding]; other site 257310012420 putative CheW interface [polypeptide binding]; other site 257310012421 2 probable transmembrane helices predicted for BB2548 by TMHMM2.0 at aa 15-37 and 206-228 257310012422 HMMPfam hit to PF00672, DE HAMP domain, score 9.7e-14 257310012423 HMMPfam hit to PF00015, DE Methyl-accepting chemotaxis protein (MCP) signaling domain, score 3.7e-111 257310012424 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 257310012425 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 257310012426 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310012427 HMMPfam hit to PF03705, DE CheR methyltransferase, all-alpha domain, score 5.8e-16 257310012428 HMMPfam hit to PF01739, DE CheR methyltransferase, SAM binding domain, score 9.7e-77 257310012429 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 257310012430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310012431 active site 257310012432 phosphorylation site [posttranslational modification] 257310012433 intermolecular recognition site; other site 257310012434 dimerization interface [polypeptide binding]; other site 257310012435 CheB methylesterase; Region: CheB_methylest; pfam01339 257310012436 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1e-31 257310012437 HMMPfam hit to PF01339, DE CheB methylesterase, score 2e-110 257310012438 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 257310012439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310012440 active site 257310012441 phosphorylation site [posttranslational modification] 257310012442 intermolecular recognition site; other site 257310012443 dimerization interface [polypeptide binding]; other site 257310012444 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 2.3e-41 257310012445 chemotaxis regulator CheZ; Provisional; Region: PRK11166 257310012446 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 257310012447 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 257310012448 HMMPfam hit to PF01312, DE FlhB HrpN YscU SpaS Family, score 4.2e-143 257310012449 4 probable transmembrane helices predicted for BB2553 by TMHMM2.0 at aa 36-58, 94-116, 143-165 and 185-207 257310012450 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 257310012451 FHIPEP family; Region: FHIPEP; pfam00771 257310012452 8 probable transmembrane helices predicted for BB2554 by TMHMM2.0 at aa 12-34, 39-61, 73-95, 115-137, 206-228, 248-270, 283-302 and 306-325 257310012453 HMMPfam hit to PF00771, DE FHIPEP family, score 0 257310012454 PS00994 Bacterial export FHIPEP family signature. 257310012455 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310012456 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 257310012457 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 257310012458 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 257310012459 HMMPfam hit to PF00448, DE SRP54-type protein, GTPase domain, score 2.5e-23 257310012460 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012461 FlgN protein; Region: FlgN; pfam05130 257310012462 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 257310012463 Signal peptide predicted for BB2558 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.647 between residues 26 and 27; signal peptide 257310012464 SAF-like; Region: SAF_2; pfam13144 257310012465 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 257310012466 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03240, DE FlgA family, score 1.5e-29 257310012467 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 257310012468 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 257310012469 HMMPfam hit to PF00460, DE Flagella basal body rod protein, score 1.9e-06 257310012470 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 257310012471 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 257310012472 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 257310012473 HMMPfam hit to PF00460, DE Flagella basal body rod protein, score 1.1e-08 257310012474 PS00588 Flagella basal body rod proteins signature. 257310012475 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK12633 257310012476 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 257310012477 Signal peptide predicted for BB2561 by SignalP 2.0 HMM (Signal peptide probabilty 0.780) with cleavage site probability 0.389 between residues 23 and 24; signal peptide 257310012478 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 257310012479 HMMPfam hit to PF03963, DE Flagellar hook capping protein, score 6.1e-32 257310012480 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 257310012481 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 257310012482 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 257310012483 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 257310012484 HMMPfam hit to PF00460, DE Flagella basal body rod protein, score 2e-10 257310012485 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 257310012486 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 257310012487 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 257310012488 HMMPfam hit to PF00460, DE Flagella basal body rod protein, score 1.7e-06 257310012489 PS00588 Flagella basal body rod proteins signature. 257310012490 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 257310012491 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 257310012492 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 257310012493 HMMPfam hit to PF00460, DE Flagella basal body rod protein, score 1.1e-10 257310012494 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12700 257310012495 Signal peptide predicted for BB2565 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.424 between residues 32 and 33; signal peptide 257310012496 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 257310012497 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310012498 HMMPfam hit to PF02107, DE Flagellar L-ring protein, score 3.1e-68 257310012499 Signal peptide predicted for BB2566 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.990 between residues 31 and 32; signal peptide 257310012500 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 257310012501 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 257310012502 1 probable transmembrane helix predicted for BB2566 by TMHMM2.0 at aa 7-29 257310012503 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02119, DE Flagellar P-ring protein, score 4.1e-196 257310012504 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12713 257310012505 Rod binding protein; Region: Rod-binding; cl01626 257310012506 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 257310012507 HMMPfam hit to PF01832, DE Mannosyl-glycoprotein endo-beta-N-acetylglucosamidase, score 1.1e-39 257310012508 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 257310012509 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 257310012510 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12718 257310012511 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 257310012512 HMMPfam hit to PF00669, DE Bacterial flagellin N-terminus, score 3.7e-09 257310012513 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 257310012514 Signal peptide predicted for BB2570 by SignalP 2.0 HMM (Signal peptide probabilty 0.782) with cleavage site probability 0.390 between residues 29 and 30; signal peptide 257310012515 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 257310012516 dimer interface [polypeptide binding]; other site 257310012517 ligand binding site [chemical binding]; other site 257310012518 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310012519 dimerization interface [polypeptide binding]; other site 257310012520 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 257310012521 dimer interface [polypeptide binding]; other site 257310012522 putative CheW interface [polypeptide binding]; other site 257310012523 2 probable transmembrane helices predicted for BB2570 by TMHMM2.0 at aa 28-50 and 211-233 257310012524 HMMPfam hit to PF00672, DE HAMP domain, score 1.7e-14 257310012525 HMMPfam hit to PF00015, DE Methyl-accepting chemotaxis protein (MCP) signaling domain, score 3.2e-111 257310012526 ortholog of Bordetella pertussis (BX470248) BP1385; Similar to Escherichia coli methyl-accepting chemotaxis protein II tar or CheM or b1886 SWALL:MCP2_ECOLI (SWALL:P07017) (553 aa) fasta scores: E(): 3.2e-54, 44.96% id in 556 aa, and to Salmonella typhimurium methyl-accepting chemotaxis protein I, serine sensor receptor tsr or stm4533 SWALL:Q8ZJY4 (EMBL:AE008913) (553 aa) fasta scores: E(): 3.2e-54, 45.6% id in 557 aa;methyl-accepting chemotaxis protein (pseudogene) 257310012527 Signal peptide predicted for BB2571 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.457 between residues 29 and 30 257310012528 2 probable transmembrane helices predicted for BB2571 by TMHMM2.0 at aa 10-32 and 192-214 257310012529 HMMPfam hit to PF00672, DE HAMP domain, score 1.6e-13 257310012530 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00015, DE Methyl-accepting chemotaxis protein (MCP) signaling domain, score 1.6e-31 257310012531 Signal peptide predicted for BB2573 by SignalP 2.0 HMM (Signal peptide probabilty 0.993) with cleavage site probability 0.580 between residues 24 and 25; signal peptide 257310012532 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310012533 Predicted helix-turn-helix motif with score 1025.000, SD 2.68 at aa 40-61, sequence TTLEEAARELGAPPDTIYGQRD 257310012534 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 257310012535 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310012536 dimerization interface [polypeptide binding]; other site 257310012537 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 257310012538 dimer interface [polypeptide binding]; other site 257310012539 putative CheW interface [polypeptide binding]; other site 257310012540 2 probable transmembrane helices predicted for BB2574 by TMHMM2.0 at aa 38-60 and 225-247 257310012541 HMMPfam hit to PF03915, DE Actin interacting protein 3, score 5.1 257310012542 HMMPfam hit to PF00672, DE HAMP domain, score 3.7e-13 257310012543 HMMPfam hit to PF00015, DE Methyl-accepting chemotaxis protein (MCP) signaling domain, score 4.5e-111 257310012544 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 257310012545 PAS fold; Region: PAS_3; pfam08447 257310012546 putative active site [active] 257310012547 heme pocket [chemical binding]; other site 257310012548 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310012549 dimerization interface [polypeptide binding]; other site 257310012550 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 257310012551 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 257310012552 dimer interface [polypeptide binding]; other site 257310012553 putative CheW interface [polypeptide binding]; other site 257310012554 HMMPfam hit to PF00785, DE PAC motif, score 1.5e-05 257310012555 HMMPfam hit to PF00672, DE HAMP domain, score 9.8e-06 257310012556 HMMPfam hit to PF00015, DE Methyl-accepting chemotaxis protein (MCP) signaling domain, score 2.3e-86 257310012557 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 257310012558 HMMPfam hit to PF01311, DE Bacterial export proteins, family 1, score 2e-77 257310012559 6 probable transmembrane helices predicted for BB2576 by TMHMM2.0 at aa 11-33, 42-64, 74-96, 129-151, 178-200 and 212-234 257310012560 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 257310012561 Signal peptide predicted for BB2577 by SignalP 2.0 HMM (Signal peptide probabilty 0.889) with cleavage site probability 0.864 between residues 40 and 41; signal peptide 257310012562 HMMPfam hit to PF01313, DE Bacterial export proteins, family 3, score 1.9e-36 257310012563 2 probable transmembrane helices predicted for BB2577 by TMHMM2.0 at aa 13-35 and 50-72 257310012564 Signal peptide predicted for BB2578 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.988 between residues 37 and 38; signal peptide 257310012565 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 257310012566 HMMPfam hit to PF00813, DE FliP family, score 7.9e-108 257310012567 5 probable transmembrane helices predicted for BB2578 by TMHMM2.0 at aa 15-37, 69-91, 106-123, 203-225 and 235-257 257310012568 PS01061 Flagella transport protein fliP family signature 2. 257310012569 PS01060 Flagella transport protein fliP family signature 1. 257310012570 Signal peptide predicted for BB2579 by SignalP 2.0 HMM (Signal peptide probabilty 0.646) with cleavage site probability 0.347 between residues 23 and 24; signal peptide 257310012571 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 257310012572 1 probable transmembrane helix predicted for BB2579 by TMHMM2.0 at aa 5-27 257310012573 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 257310012574 HMMPfam hit to PF01052, DE Surface presentation of antigens (SPOA) protein, score 5.5e-34 257310012575 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 257310012576 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 257310012577 HMMPfam hit to PF01052, DE Surface presentation of antigens (SPOA) protein, score 0.0047 257310012578 HMMPfam hit to PF02154, DE Flagellar motor switch protein FliM, score 5.8e-95 257310012579 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 257310012580 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03748, DE Flagellar basal body-associated protein FliL, score 5.3e-17 257310012581 Signal peptide predicted for BB2583 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.341 between residues 29 and 30; signal peptide 257310012582 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310012583 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 257310012584 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 257310012585 HMMPfam hit to PF02050, DE Flagellar FliJ protein, score 1.6e-13 257310012586 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 257310012587 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 257310012588 Walker A motif/ATP binding site; other site 257310012589 Walker B motif; other site 257310012590 HMMPfam hit to PF00006, DE ATP synthase alpha/beta family, nucleotide-binding domain, score 1.8e-131 257310012591 PS00152 ATP synthase alpha and beta subunits signature. 257310012592 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012593 flagellar assembly protein H; Validated; Region: fliH; PRK05687 257310012594 Flagellar assembly protein FliH; Region: FliH; pfam02108 257310012595 HMMPfam hit to PF02108, DE Flagellar assembly protein FliH, score 1.2e-12 257310012596 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 257310012597 FliG C-terminal domain; Region: FliG_C; pfam01706 257310012598 HMMPfam hit to PF01706, DE FliG C-terminal domain, score 3.4e-52 257310012599 Signal peptide predicted for BB2588 by SignalP 2.0 HMM (Signal peptide probabilty 0.814) with cleavage site probability 0.509 between residues 44 and 45; signal peptide 257310012600 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 257310012601 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 257310012602 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 257310012603 2 probable transmembrane helices predicted for BB2588 by TMHMM2.0 at aa 28-47 and 463-485 257310012604 HMMPfam hit to PF01514, DE Secretory protein of YscJ/FliF family, score 5.5e-78 257310012605 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 257310012606 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02049, DE Flagellar hook-basal body complex protein FliE, score 6.7e-20 257310012607 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 257310012608 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 257310012609 Flagellar protein FliT; Region: FliT; pfam05400 257310012610 Flagellar protein FliS; Region: FliS; cl00654 257310012611 HMMPfam hit to PF02561, DE Flagellar protein FliS, score 6.4e-23 257310012612 flagellar capping protein; Reviewed; Region: fliD; PRK08032 257310012613 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 257310012614 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 257310012615 HMMPfam hit to PF02465, DE Flagellar hook-associated protein 2, score 1.2e-58 257310012616 Signal peptide predicted for BB2596 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.565 between residues 23 and 24; signal peptide 257310012617 FlaG protein; Region: FlaG; pfam03646 257310012618 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 257310012619 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257310012620 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257310012621 HMMPfam hit to PF01225, DE Mur ligase family, catalytic domain, score 1.9e-14 257310012622 PS01011 Folylpolyglutamate synthase signature 1. 257310012623 HMMPfam hit to PF02875, DE Mur ligase family, glutamate ligase domain, score 0.0025 257310012624 Sporulation related domain; Region: SPOR; pfam05036 257310012625 1 probable transmembrane helix predicted for BB2598 by TMHMM2.0 at aa 39-57 257310012626 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 257310012627 Colicin V production protein; Region: Colicin_V; pfam02674 257310012628 HMMPfam hit to PF02674, DE Colicin V production protein, score 4.4e-30 257310012629 4 probable transmembrane helices predicted for BB2599 by TMHMM2.0 at aa 6-25, 30-52, 67-89 and 101-123 257310012630 amidophosphoribosyltransferase; Provisional; Region: PRK09246 257310012631 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 257310012632 active site 257310012633 tetramer interface [polypeptide binding]; other site 257310012634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257310012635 active site 257310012636 PS00443 Glutamine amidotransferases class-II active site. 257310012637 HMMPfam hit to PF00310, DE Glutamine amidotransferases class-II, score 2.8e-65 257310012638 HMMPfam hit to PF00156, DE Phosphoribosyl transferase domain, score 3.9e-12 257310012639 PS00103 Purine/pyrimidine phosphoribosyl transferases signature. 257310012640 Signal peptide predicted for BB2601 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.573 between residues 23 and 24; signal peptide 257310012641 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 257310012642 5 probable transmembrane helices predicted for BB2601 by TMHMM2.0 at aa 7-29, 39-61, 66-88, 110-132 and 134-153 257310012643 MarC family integral membrane protein; Region: MarC; cl00919 257310012644 HMMPfam hit to PF01914, DE MarC family integral membrane protein, score 2.9e-24 257310012645 6 probable transmembrane helices predicted for BB2602 by TMHMM2.0 at aa 15-37, 53-75, 79-98, 124-146, 161-183 and 195-217 257310012646 PII uridylyl-transferase; Provisional; Region: PRK03059 257310012647 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 257310012648 metal binding triad; other site 257310012649 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 257310012650 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257310012651 Zn2+ binding site [ion binding]; other site 257310012652 Mg2+ binding site [ion binding]; other site 257310012653 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 257310012654 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 257310012655 HMMPfam hit to PF01842, DE ACT domain, score 0.00012 257310012656 HMMPfam hit to PF01842, DE ACT domain, score 18 257310012657 HMMPfam hit to PF01966, DE HD domain, score 3.7e-10 257310012658 HMMPfam hit to PF01909, DE Nucleotidyltransferase domain, score 3.6e-08 257310012659 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 257310012660 active site 257310012661 HMMPfam hit to PF00557, DE metallopeptidase family M24, score 2.5e-73 257310012662 PS00680 Methionine aminopeptidase subfamily 1 signature. 257310012663 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 257310012664 rRNA interaction site [nucleotide binding]; other site 257310012665 S8 interaction site; other site 257310012666 putative laminin-1 binding site; other site 257310012667 PS00962 Ribosomal protein S2 signature 1. 257310012668 HMMPfam hit to PF00318, DE Ribosomal protein S2, score 3.5e-100 257310012669 elongation factor Ts; Provisional; Region: tsf; PRK09377 257310012670 Signal peptide predicted for BB2606 by SignalP 2.0 HMM (Signal peptide probabilty 0.750) with cleavage site probability 0.575 between residues 19 and 20; signal peptide 257310012671 UBA/TS-N domain; Region: UBA; pfam00627 257310012672 Elongation factor TS; Region: EF_TS; pfam00889 257310012673 Elongation factor TS; Region: EF_TS; pfam00889 257310012674 HMMPfam hit to PF00627, DE UBA/TS-N domain, score 0.0022 257310012675 HMMPfam hit to PF00889, DE Elongation factor TS, score 6.1e-88 257310012676 PS01127 Elongation factor Ts signature 2. 257310012677 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 257310012678 putative nucleotide binding site [chemical binding]; other site 257310012679 uridine monophosphate binding site [chemical binding]; other site 257310012680 homohexameric interface [polypeptide binding]; other site 257310012681 HMMPfam hit to PF00696, DE Amino acid kinase family, score 4.8e-46 257310012682 ribosome recycling factor; Reviewed; Region: frr; PRK00083 257310012683 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 257310012684 hinge region; other site 257310012685 HMMPfam hit to PF01765, DE Ribosome recycling factor, score 6.6e-85 257310012686 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 257310012687 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 257310012688 catalytic residue [active] 257310012689 putative FPP diphosphate binding site; other site 257310012690 putative FPP binding hydrophobic cleft; other site 257310012691 dimer interface [polypeptide binding]; other site 257310012692 putative IPP diphosphate binding site; other site 257310012693 HMMPfam hit to PF01255, DE undecaprenyl diphosphate synthase, score 4.1e-98 257310012694 Signal peptide predicted for BB2610 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.637 between residues 23 and 24; signal peptide 257310012695 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 257310012696 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 257310012697 8 probable transmembrane helices predicted for BB2610 by TMHMM2.0 at aa 5-22, 26-48, 55-77, 87-109, 121-143, 148-167, 180-202 and 222-244 257310012698 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01148, DE Phosphatidate cytidylyltransferase, score 3.4e-51 257310012699 PS01315 Phosphatidate cytidylyltransferase signature. 257310012700 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 257310012701 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 257310012702 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 257310012703 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 257310012704 HMMPfam hit to PF02670, DE 1-deoxy-D-xylulose 5-phosphate reductoisomerase, score 1.3e-175 257310012705 zinc metallopeptidase RseP; Provisional; Region: PRK10779 257310012706 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 257310012707 active site 257310012708 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 257310012709 putative substrate binding region [chemical binding]; other site 257310012710 4 probable transmembrane helices predicted for BB2612 by TMHMM2.0 at aa 5-27, 95-117, 371-393 and 418-440 257310012711 PS00142 Neutral zinc metallopeptidases, zinc-binding region signature. 257310012712 HMMPfam hit to PF00595, DE PDZ domain (Also known as DHR or GLGF), score 0.01 257310012713 Signal peptide predicted for BB2613 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.755 between residues 30 and 31; signal peptide 257310012714 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 257310012715 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 257310012716 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 257310012717 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 257310012718 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 257310012719 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 257310012720 Surface antigen; Region: Bac_surface_Ag; pfam01103 257310012721 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01103, DE Bacterial surface antigen, score 6.8e-208 257310012722 1 probable transmembrane helix predicted for BB2613 by TMHMM2.0 at aa 12-31 257310012723 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310012724 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310012725 Signal peptide predicted for BB2614 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.488 between residues 44 and 45; signal peptide 257310012726 periplasmic chaperone; Provisional; Region: PRK10780 257310012727 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 257310012728 HMMPfam hit to PF03938, DE Outer membrane protein (OmpH-like), score 5.8e-27 257310012729 1 probable transmembrane helix predicted for BB2614 by TMHMM2.0 at aa 22-44 257310012730 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 257310012731 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 257310012732 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 257310012733 trimer interface [polypeptide binding]; other site 257310012734 active site 257310012735 UDP-GlcNAc binding site [chemical binding]; other site 257310012736 lipid binding site [chemical binding]; lipid-binding site 257310012737 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 39 257310012738 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 0.016 257310012739 PS00101 Hexapeptide-repeat containing-transferases signature. 257310012740 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 33 257310012741 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 0.47 257310012742 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 0.3 257310012743 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 41 257310012744 PS00101 Hexapeptide-repeat containing-transferases signature. 257310012745 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 14 257310012746 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 65 257310012747 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 257310012748 HMMPfam hit to PF01377, DE Thioester dehydrase, score 7.5e-67 257310012749 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 257310012750 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 257310012751 active site 257310012752 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 62 257310012753 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 17 257310012754 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 2.5e+02 257310012755 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 36 257310012756 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 2.1 257310012757 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 2.5e+02 257310012758 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 2.2e+02 257310012759 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 257310012760 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 257310012761 HMMPfam hit to PF02684, DE Lipid-A-disaccharide synthetase, score 4.5e-97 257310012762 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 257310012763 RNA/DNA hybrid binding site [nucleotide binding]; other site 257310012764 active site 257310012765 HMMPfam hit to PF01351, DE Ribonuclease HII, score 1.3e-65 257310012766 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 257310012767 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 257310012768 HMMPfam hit to PF00588, DE SpoU rRNA Methylase family, score 2.3e-18 257310012769 PEP synthetase regulatory protein; Provisional; Region: PRK05339 257310012770 HMMPfam hit to PF03618, DE Domain of unknown function (DUF299), score 6.7e-120 257310012771 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012772 phosphoenolpyruvate synthase; Validated; Region: PRK06464 257310012773 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 257310012774 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 257310012775 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 257310012776 HMMPfam hit to PF01326, DE Pyruvate phosphate dikinase, PEP/pyruvate binding domain, score 1.9e-129 257310012777 HMMPfam hit to PF00391, DE PEP-utilizing enzyme, mobile domain, score 3.4e-40 257310012778 PS00370 PEP-utilizing enzymes phosphorylation site signature. 257310012779 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02896, DE PEP-utilizing enzyme, TIM barrel domain, score 7e-104 257310012780 PS00742 PEP-utilizing enzymes signature 2. 257310012781 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 257310012782 catalytic triad [active] 257310012783 HMMPfam hit to PF00117, DE Glutamine amidotransferase class-I, score 3.2e-09 257310012784 PS00442 Glutamine amidotransferases class-I active site. 257310012785 Signal peptide predicted for BB2624 by SignalP 2.0 HMM (Signal peptide probabilty 0.622) with cleavage site probability 0.235 between residues 31 and 32; signal peptide 257310012786 2 probable transmembrane helices predicted for BB2624 by TMHMM2.0 at aa 7-29 and 44-61 257310012787 Signal peptide predicted for BB2625 by SignalP 2.0 HMM (Signal peptide probabilty 0.709) with cleavage site probability 0.611 between residues 25 and 26; signal peptide 257310012788 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 257310012789 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 257310012790 1 probable transmembrane helix predicted for BB2625 by TMHMM2.0 at aa 7-29 257310012791 HMMPfam hit to PF01145, DE SPFH domain / Band 7 family, score 1.1e-70 257310012792 Signal peptide predicted for BB2626 by SignalP 2.0 HMM (Signal peptide probabilty 0.772) with cleavage site probability 0.371 between residues 23 and 24; signal peptide 257310012793 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310012794 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310012795 metal binding site [ion binding]; metal-binding site 257310012796 active site 257310012797 I-site; other site 257310012798 7 probable transmembrane helices predicted for BB2626 by TMHMM2.0 at aa 4-26, 38-57, 61-83, 90-112, 116-138, 150-172 and 187-209 257310012799 HMMPfam hit to PF00990, DE GGDEF domain, score 4.8e-48 257310012800 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 257310012801 SmpB-tmRNA interface; other site 257310012802 HMMPfam hit to PF01668, DE SmpB protein, score 2.9e-39 257310012803 PS01317 Protein smpB signature. 257310012804 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 257310012805 putative coenzyme Q binding site [chemical binding]; other site 257310012806 HMMPfam hit to PF03654, DE Uncharacterised protein family (UPF0083), score 3.2e-53 257310012807 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 257310012808 HMMPfam hit to PF03658, DE Uncharacterised protein family (UPF0125), score 3.4e-17 257310012809 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310012810 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310012811 active site 257310012812 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 1.9e-17 257310012813 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 5.7e-46 257310012814 PS00072 Acyl-CoA dehydrogenases signature 1. 257310012815 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 6e-71 257310012816 PS00073 Acyl-CoA dehydrogenases signature 2. 257310012817 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 257310012818 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310012819 substrate binding site [chemical binding]; other site 257310012820 oxyanion hole (OAH) forming residues; other site 257310012821 trimer interface [polypeptide binding]; other site 257310012822 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 257310012823 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 2.4e-14 257310012824 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257310012825 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 257310012826 HMMPfam hit to PF03446, DE NAD binding domain of 6-phosphogluconate dehydrogenase, score 0.0015 257310012827 PS00895 3-hydroxyisobutyrate dehydrogenase signature. 257310012828 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 257310012829 CoenzymeA binding site [chemical binding]; other site 257310012830 subunit interaction site [polypeptide binding]; other site 257310012831 PHB binding site; other site 257310012832 HMMPfam hit to PF02584, DE Uncharacterized protein PaaI, COG2050, score 0.00016 257310012833 Signal peptide predicted for BB2634 by SignalP 2.0 HMM (Signal peptide probabilty 0.967) with cleavage site probability 0.865 between residues 44 and 45; signal peptide 257310012834 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 257310012835 5 probable transmembrane helices predicted for BB2634 by TMHMM2.0 at aa 13-35, 45-67, 146-168, 173-192 and 205-227 257310012836 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 257310012837 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 257310012838 Signal peptide predicted for BB2636 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.719 between residues 27 and 28; signal peptide 257310012839 YceG-like family; Region: YceG; pfam02618 257310012840 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 257310012841 dimerization interface [polypeptide binding]; other site 257310012842 HMMPfam hit to PF02618, DE Uncharacterized BCR, YceG family COG1559, score 2.5e-87 257310012843 Predicted helix-turn-helix motif with score 1112.000, SD 2.97 at aa 113-134, sequence MSQRQITFLEGWTFRQMRQALR 257310012844 thymidylate kinase; Validated; Region: tmk; PRK00698 257310012845 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 257310012846 TMP-binding site; other site 257310012847 ATP-binding site [chemical binding]; other site 257310012848 HMMPfam hit to PF02223, DE Thymidylate kinase, score 5.4e-57 257310012849 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012850 PS00215 Mitochondrial energy transfer proteins signature. 257310012851 DNA polymerase III subunit delta'; Validated; Region: PRK06964 257310012852 DNA polymerase III subunit delta'; Validated; Region: PRK08485 257310012853 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 257310012854 active site 257310012855 PS01137 Uncharacterized protein family UPF0006 signature 1. 257310012856 HMMPfam hit to PF01026, DE TatD related DNase, score 2.1e-88 257310012857 PS01091 Uncharacterized protein family UPF0006 signature 3. 257310012858 Signal peptide predicted for BB2640 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 31 and 32; signal peptide 257310012859 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 257310012860 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 257310012861 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 257310012862 HMMPfam hit to PF00023, DE Ankyrin repeat, score 2.3e-07 257310012863 HMMPfam hit to PF00023, DE Ankyrin repeat, score 6.5e-09 257310012864 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310012865 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310012866 putative DNA binding site [nucleotide binding]; other site 257310012867 putative Zn2+ binding site [ion binding]; other site 257310012868 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310012869 Predicted helix-turn-helix motif with score 1775.000, SD 5.23 at aa 27-48, sequence LTVAALAERTGLAQSTLYRQVA 257310012870 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 5.3e-15 257310012871 Signal peptide predicted for BB2642 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 25 and 26; signal peptide 257310012872 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310012873 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257310012874 substrate binding pocket [chemical binding]; other site 257310012875 membrane-bound complex binding site; other site 257310012876 hinge residues; other site 257310012877 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 6.1e-73 257310012878 PS01039 Bacterial extracellular substrate-binding proteins, family 3 signature. 257310012879 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310012880 dimer interface [polypeptide binding]; other site 257310012881 conserved gate region; other site 257310012882 putative PBP binding loops; other site 257310012883 ABC-ATPase subunit interface; other site 257310012884 4 probable transmembrane helices predicted for BB2643 by TMHMM2.0 at aa 20-42, 55-77, 82-104 and 186-208 257310012885 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 5.4e-16 257310012886 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310012887 Predicted helix-turn-helix motif with score 1093.000, SD 2.91 at aa 117-138, sequence RGQMEAARSLGMSSAQAMRIII 257310012888 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310012889 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310012890 Walker A/P-loop; other site 257310012891 ATP binding site [chemical binding]; other site 257310012892 Q-loop/lid; other site 257310012893 ABC transporter signature motif; other site 257310012894 Walker B; other site 257310012895 D-loop; other site 257310012896 H-loop/switch region; other site 257310012897 HMMPfam hit to PF00005, DE ABC transporter score 4.4e-58 257310012898 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012899 PS00211 ABC transporters family signature. 257310012900 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 257310012901 putative active site [active] 257310012902 putative metal binding site [ion binding]; other site 257310012903 HMMPfam hit to PF00491, DE Arginase family, score 5.9e-08 257310012904 PS00147 Arginase family signature 1. 257310012905 PS00148 Arginase family signature 2. 257310012906 PS01053 Arginase family signature 3. 257310012907 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 257310012908 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 257310012909 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 257310012910 NAD(P) binding site [chemical binding]; other site 257310012911 HMMPfam hit to PF02812, DE Glu/Leu/Phe/Val dehydrogenase, dimerisation domain, score 2.5e-64 257310012912 PS00074 Glu / Leu / Phe / Val dehydrogenases active site. 257310012913 HMMPfam hit to PF00208, DE Glutamate/Leucine/Phenylalanine/Valine dehydrogenase, score 2.9e-95 257310012914 PS01039 Bacterial extracellular substrate-binding proteins, family 3 signature. 257310012915 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 257310012916 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 257310012917 NAD(P) binding site [chemical binding]; other site 257310012918 catalytic residues [active] 257310012919 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 1.7e-192 257310012920 PS00070 Aldehyde dehydrogenases cysteine active site. 257310012921 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310012922 Predicted helix-turn-helix motif with score 992.000, SD 2.57 at aa 201-222, sequence LRLAALAEQAGIPPGVFSVVPG 257310012923 allantoate amidohydrolase; Reviewed; Region: PRK12893 257310012924 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 257310012925 active site 257310012926 metal binding site [ion binding]; metal-binding site 257310012927 dimer interface [polypeptide binding]; other site 257310012928 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 1.5e-19 257310012929 PS00017 ATP/GTP-binding site motif A (P-loop). 257310012930 thiamine pyrophosphate protein; Validated; Region: PRK08199 257310012931 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310012932 PYR/PP interface [polypeptide binding]; other site 257310012933 dimer interface [polypeptide binding]; other site 257310012934 TPP binding site [chemical binding]; other site 257310012935 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310012936 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 257310012937 TPP-binding site [chemical binding]; other site 257310012938 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 6.9e-30 257310012939 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 2.7e-09 257310012940 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 3.9e-49 257310012941 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 257310012942 Signal peptide predicted for BB2651 by SignalP 2.0 HMM (Signal peptide probabilty 0.782) with cleavage site probability 0.234 between residues 29 and 30; signal peptide 257310012943 DctM-like transporters; Region: DctM; pfam06808 257310012944 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310012945 12 probable transmembrane helices predicted for BB2651 by TMHMM2.0 at aa 15-37, 49-71, 86-108, 110-129, 139-161, 173-195, 215-237, 242-261, 276-295, 315-346, 356-378 and 398-420 257310012946 HMMPfam hit to PF00597, DE DedA family, score 1.3e-06 257310012947 Signal peptide predicted for BB2652 by SignalP 2.0 HMM (Signal peptide probabilty 0.973) with cleavage site probability 0.895 between residues 25 and 26; signal peptide 257310012948 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 257310012949 3 probable transmembrane helices predicted for BB2652 by TMHMM2.0 at aa 15-33, 95-112 and 127-149 257310012950 Signal peptide predicted for BB2653 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 29 and 30; signal peptide 257310012951 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310012952 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 257310012953 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 2.2e-99 257310012954 1 probable transmembrane helix predicted for BB2653 by TMHMM2.0 at aa 13-30 257310012955 Transcriptional regulators [Transcription]; Region: FadR; COG2186 257310012956 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310012957 DNA-binding site [nucleotide binding]; DNA binding site 257310012958 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 257310012959 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.3e-24 257310012960 PS00043 Bacterial regulatory proteins, gntR family signature. 257310012961 Protein of unknown function, DUF488; Region: DUF488; cl01246 257310012962 Signal peptide predicted for BB2656 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.304 between residues 26 and 27; signal peptide 257310012963 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310012964 Cytochrome c; Region: Cytochrom_C; pfam00034 257310012965 HMMPfam hit to PF00034, DE Cytochrome c, score 0.00056 257310012966 PS00190 Cytochrome c family heme-binding site signature. 257310012967 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 257310012968 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 257310012969 TrkA-C domain; Region: TrkA_C; pfam02080 257310012970 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 257310012971 10 probable transmembrane helices predicted for BB2657 by TMHMM2.0 at aa 4-26, 33-55, 68-90, 97-119, 162-184, 389-411, 415-432, 453-472, 482-504 and 539-561 257310012972 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 257310012973 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 257310012974 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310012975 catalytic residue [active] 257310012976 HMMPfam hit to PF00282, DE Pyridoxal-dependent decarboxylase conserved domain, score 3.7e-50 257310012977 Transmembrane secretion effector; Region: MFS_3; pfam05977 257310012978 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310012979 putative substrate translocation pore; other site 257310012980 12 probable transmembrane helices predicted for BB2659 by TMHMM2.0 at aa 80-102, 112-134, 147-166, 171-193, 206-228, 233-252, 288-310, 320-339, 346-368, 372-394, 407-429 and 439-456 257310012981 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310012982 Signal peptide predicted for BB2660 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.922 between residues 22 and 23; signal peptide 257310012983 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310012984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310012985 metal binding site [ion binding]; metal-binding site 257310012986 active site 257310012987 I-site; other site 257310012988 2 probable transmembrane helices predicted for BB2660 by TMHMM2.0 at aa 4-21 and 275-297 257310012989 HMMPfam hit to PF00990, DE GGDEF domain, score 1.2e-43 257310012990 RNA polymerase sigma factor; Provisional; Region: PRK12511 257310012991 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310012992 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 257310012993 DNA binding residues [nucleotide binding] 257310012994 HMMPfam hit to PF00776, , score 8.2e-13 257310012995 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 257310012996 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 257310012997 HMMPfam hit to PF03741, DE Integral membrane protein TerC family, score 2.4e-44 257310012998 6 probable transmembrane helices predicted for BB2663 by TMHMM2.0 at aa 11-33, 46-68, 106-128, 141-163, 173-195 and 202-224 257310012999 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 257310013000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310013001 active site 257310013002 phosphorylation site [posttranslational modification] 257310013003 intermolecular recognition site; other site 257310013004 dimerization interface [polypeptide binding]; other site 257310013005 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 257310013006 HMMPfam hit to PF00563, DE EAL domain, score 9.3e-74 257310013007 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 7.3e-12 257310013008 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 257310013009 1 probable transmembrane helix predicted for BB2666 by TMHMM2.0 at aa 113-135 257310013010 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 257310013011 Ligand Binding Site [chemical binding]; other site 257310013012 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00582, DE Universal stress protein family, score 7.4e-14 257310013013 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 257310013014 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily; Region: M14_ASTE_ASPA_like; cd06230 257310013015 active site 257310013016 Zn binding site [ion binding]; other site 257310013017 Signal peptide predicted for BB2669 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.656 between residues 23 and 24; signal peptide 257310013018 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 257310013019 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 257310013020 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 257310013021 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 257310013022 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 257310013023 Transporter associated domain; Region: CorC_HlyC; pfam03471 257310013024 HMMPfam hit to PF03741, DE Integral membrane protein TerC family, score 2.2e-82 257310013025 6 probable transmembrane helices predicted for BB2671 by TMHMM2.0 at aa 15-37, 53-75, 80-102, 134-156, 161-183 and 190-212 257310013026 HMMPfam hit to PF00571, DE CBS domain, score 1.9e-05 257310013027 HMMPfam hit to PF00571, DE CBS domain, score 1.9e-06 257310013028 HMMPfam hit to PF03471, DE Transporter associated domain, score 7.3e-11 257310013029 Amino acid synthesis; Region: AA_synth; pfam06684 257310013030 Signal peptide predicted for BB2673 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.904 between residues 20 and 21; signal peptide 257310013031 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013032 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.7e-82 257310013033 PS00017 ATP/GTP-binding site motif A (P-loop). 257310013034 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257310013035 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 257310013036 HMMPfam hit to PF03446, DE NAD binding domain of 6-phosphogluconate dehydrogenase, score 4.1e-06 257310013037 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 257310013038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310013039 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 257310013040 putative dimerization interface [polypeptide binding]; other site 257310013041 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.5e-19 257310013042 Predicted helix-turn-helix motif with score 1443.000, SD 4.10 at aa 25-46, sequence GSMNGAARLLFVSQPAVSRLIA 257310013043 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.1e-42 257310013044 hypothetical protein; Provisional; Region: PRK06486 257310013045 active site 257310013046 intersubunit interface [polypeptide binding]; other site 257310013047 Zn2+ binding site [ion binding]; other site 257310013048 HMMPfam hit to PF00596, DE Class II Aldolase and Adducin N-terminal domain, score 1.4e-25 257310013049 PS00215 Mitochondrial energy transfer proteins signature. 257310013050 Signal peptide predicted for BB2677 by SignalP 2.0 HMM (Signal peptide probabilty 0.981) with cleavage site probability 0.671 between residues 22 and 23; signal peptide 257310013051 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 257310013052 dimer interface [polypeptide binding]; other site 257310013053 catalytic triad [active] 257310013054 HMMPfam hit to PF02016, DE Uncharacterized protein family UPF0094, score 1.5e-61 257310013055 1 probable transmembrane helix predicted for BB2678 by TMHMM2.0 at aa 4-26 257310013056 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 257310013057 Na binding site [ion binding]; other site 257310013058 15 probable transmembrane helices predicted for BB2679 by TMHMM2.0 at aa 78-100, 113-135, 145-167, 198-220, 226-248, 255-277, 297-319, 339-361, 376-398, 436-458, 462-484, 491-513, 517-539, 546-563 and 568-590 257310013059 HMMPfam hit to PF00474, DE Sodium:solute symporter family, score 1.5e-06 257310013060 Signal peptide predicted for BB2680 by SignalP 2.0 HMM (Signal peptide probabilty 0.798) with cleavage site probability 0.491 between residues 24 and 25; signal peptide 257310013061 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310013062 putative substrate translocation pore; other site 257310013063 12 probable transmembrane helices predicted for BB2680 by TMHMM2.0 at aa 39-61, 76-98, 105-127, 131-153, 160-182, 187-209, 222-244, 249-266, 286-308, 323-345, 352-374 and 443-465 257310013064 short chain dehydrogenase; Provisional; Region: PRK12747 257310013065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310013066 NAD(P) binding site [chemical binding]; other site 257310013067 active site 257310013068 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.2e-72 257310013069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310013070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310013071 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 257310013072 putative dimerization interface [polypeptide binding]; other site 257310013073 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 8.3e-40 257310013074 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.9e-18 257310013075 PS00044 Bacterial regulatory proteins, lysR family signature. 257310013076 Predicted helix-turn-helix motif with score 1838.000, SD 5.45 at aa 18-39, sequence GSIADAARRLGLAPTTVAQQIR 257310013077 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 257310013078 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 257310013079 active site pocket [active] 257310013080 HMMPfam hit to PF02746, DE Mandelate racemase / muconate lactonizing enzyme, N-terminal domain, score 7.6e-19 257310013081 PS00213 Lipocalin signature. 257310013082 HMMPfam hit to PF01188, DE Mandelate racemase / muconate lactonizing enzyme, C-terminal domain, score 7.9e-24 257310013083 PS00017 ATP/GTP-binding site motif A (P-loop). 257310013084 Signal peptide predicted for BB2684 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 21 and 22; signal peptide 257310013085 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013086 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310013087 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 5.9e-69 257310013088 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 257310013089 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 257310013090 active site 257310013091 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 257310013092 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310013093 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310013094 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310013095 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.3e-71 257310013096 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 257310013097 carboxyltransferase (CT) interaction site; other site 257310013098 biotinylation site [posttranslational modification]; other site 257310013099 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 1.7e-11 257310013100 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 257310013101 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257310013102 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257310013103 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 257310013104 HMMPfam hit to PF02785, DE Biotin carboxylase C-terminal domain, score 3.6e-46 257310013105 HMMPfam hit to PF02786, DE Carbamoyl-phosphate synthase L chain, ATP binding domain, score 2e-76 257310013106 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310013107 PS00866 Carbamoyl-phosphate synthase subdomain signature 1. 257310013108 HMMPfam hit to PF00289, DE Carbamoyl-phosphate synthase L chain, N-terminal domain, score 3.5e-39 257310013109 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 257310013110 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 257310013111 HMMPfam hit to PF01039, DE Carboxyl transferase domain, score 1.1e-70 257310013112 Signal peptide predicted for BB2691 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.569 between residues 28 and 29; signal peptide 257310013113 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013114 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-62 257310013115 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 257310013116 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 257310013117 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310013118 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 0.00085 257310013119 Signal peptide predicted for BB2696 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.406 between residues 29 and 30; signal peptide 257310013120 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 257310013121 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310013122 ABC-ATPase subunit interface; other site 257310013123 putative PBP binding loops; other site 257310013124 6 probable transmembrane helices predicted for BB2696 by TMHMM2.0 at aa 7-29, 63-85, 98-120, 125-147, 183-205 and 225-247 257310013125 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.3e-11 257310013126 Signal peptide predicted for BB2697 by SignalP 2.0 HMM (Signal peptide probabilty 0.967) with cleavage site probability 0.803 between residues 25 and 26; signal peptide 257310013127 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310013128 dimer interface [polypeptide binding]; other site 257310013129 conserved gate region; other site 257310013130 putative PBP binding loops; other site 257310013131 ABC-ATPase subunit interface; other site 257310013132 6 probable transmembrane helices predicted for BB2697 by TMHMM2.0 at aa 9-31, 57-79, 92-114, 145-167, 187-209 and 245-267 257310013133 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 7e-11 257310013134 Signal peptide predicted for BB2698 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.774 between residues 25 and 26; signal peptide 257310013135 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 257310013136 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 257310013137 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 2.2e-07 257310013138 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 257310013139 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 257310013140 Walker A/P-loop; other site 257310013141 ATP binding site [chemical binding]; other site 257310013142 Q-loop/lid; other site 257310013143 ABC transporter signature motif; other site 257310013144 Walker B; other site 257310013145 D-loop; other site 257310013146 H-loop/switch region; other site 257310013147 TOBE domain; Region: TOBE_2; pfam08402 257310013148 HMMPfam hit to PF00005, DE ABC transporter score 3.8e-68 257310013149 PS00211 ABC transporters family signature. 257310013150 PS00017 ATP/GTP-binding site motif A (P-loop). 257310013151 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310013152 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310013153 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310013154 Predicted helix-turn-helix motif with score 1041.000, SD 2.73 at aa 35-56, sequence MSLSELAARLDASISSVQRTVF 257310013155 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310013156 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 3.5e-45 257310013157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310013158 NAD(P) binding site [chemical binding]; other site 257310013159 active site 257310013160 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 5e-73 257310013161 PS00061 Short-chain dehydrogenases/reductases family signature. 257310013162 Dienelactone hydrolase family; Region: DLH; pfam01738 257310013163 HMMPfam hit to PF01738, DE Dienelactone hydrolase family, score 7.3e-58 257310013164 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310013165 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310013166 DNA-binding site [nucleotide binding]; DNA binding site 257310013167 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 257310013168 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.4e-10 257310013169 PS00043 Bacterial regulatory proteins, gntR family signature. 257310013170 Predicted helix-turn-helix motif with score 1213.000, SD 3.32 at aa 35-56, sequence PTEVELAARLGVSRATIRDAME 257310013171 Signal peptide predicted for BB2704 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.915 between residues 28 and 29; signal peptide 257310013172 DctM-like transporters; Region: DctM; pfam06808 257310013173 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310013174 11 probable transmembrane helices predicted for BB2704 by TMHMM2.0 at aa 12-34, 96-118, 139-161, 171-193, 213-235, 240-257, 278-300, 310-332, 337-354, 358-380 and 393-415 257310013175 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310013176 4 probable transmembrane helices predicted for BB2705 by TMHMM2.0 at aa 13-35, 45-67, 88-110 and 130-152 257310013177 PS00211 ABC transporters family signature. 257310013178 Signal peptide predicted for BB2706 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.967 between residues 26 and 27; signal peptide 257310013179 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310013180 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310013181 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 5.6e-31 257310013182 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 257310013183 agmatinase; Region: agmatinase; TIGR01230 257310013184 oligomer interface [polypeptide binding]; other site 257310013185 putative active site [active] 257310013186 Mn binding site [ion binding]; other site 257310013187 HMMPfam hit to PF00491, DE Arginase family, score 2.1e-32 257310013188 PS00148 Arginase family signature 2. 257310013189 Signal peptide predicted for BB2708 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.790 between residues 30 and 31; signal peptide 257310013190 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013191 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.5e-89 257310013192 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310013193 Signal peptide predicted for BB2709 by SignalP 2.0 HMM (Signal peptide probabilty 0.821) with cleavage site probability 0.689 between residues 33 and 34; signal peptide 257310013194 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 257310013195 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310013196 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310013197 dimerization interface [polypeptide binding]; other site 257310013198 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.1e-19 257310013199 Predicted helix-turn-helix motif with score 1765.000, SD 5.20 at aa 16-37, sequence GSLSAAARLLNMTQPAVSQTMN 257310013200 PS00044 Bacterial regulatory proteins, lysR family signature. 257310013201 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.8e-24 257310013202 Signal peptide predicted for BB2710 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.447 between residues 29 and 30; signal peptide 257310013203 1 probable transmembrane helix predicted for BB2710 by TMHMM2.0 at aa 12-34 257310013204 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310013205 Signal peptide predicted for BB2711 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.792 between residues 24 and 25; signal peptide 257310013206 Signal peptide predicted for BB2712 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 34 and 35; signal peptide 257310013207 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 257310013208 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 257310013209 ligand binding site [chemical binding]; other site 257310013210 HMMPfam hit to PF00532, DE Periplasmic binding proteins and sugar binding domain of the LacI family, score 0.84 257310013211 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310013212 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 257310013213 TM-ABC transporter signature motif; other site 257310013214 9 probable transmembrane helices predicted for BB2713 by TMHMM2.0 at aa 20-39, 49-71, 78-97, 101-123, 130-152, 167-189, 220-242, 257-286 and 293-315 257310013215 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 257310013216 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 257310013217 Walker A/P-loop; other site 257310013218 ATP binding site [chemical binding]; other site 257310013219 Q-loop/lid; other site 257310013220 ABC transporter signature motif; other site 257310013221 Walker B; other site 257310013222 D-loop; other site 257310013223 H-loop/switch region; other site 257310013224 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 257310013225 HMMPfam hit to PF00005, DE ABC transporter score 1.2e-11 257310013226 PS00211 ABC transporters family signature. 257310013227 HMMPfam hit to PF00005, DE ABC transporter score 6.2e-48 257310013228 PS00017 ATP/GTP-binding site motif A (P-loop). 257310013229 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 257310013230 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 257310013231 HMMPfam hit to PF01557, DE Fumarylacetoacetate (FAA) hydrolase family, score 4.1e-59 257310013232 PS00012 Phosphopantetheine attachment site. 257310013233 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310013234 homotrimer interaction site [polypeptide binding]; other site 257310013235 putative active site [active] 257310013236 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 5.6e-16 257310013237 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 257310013238 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 257310013239 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 257310013240 active site 257310013241 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 257310013242 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310013243 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 5.8e-25 257310013244 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310013245 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310013246 DNA-binding site [nucleotide binding]; DNA binding site 257310013247 FCD domain; Region: FCD; pfam07729 257310013248 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 2.6e-09 257310013249 HipA N-terminal domain; Region: Couple_hipA; pfam13657 257310013250 HipA-like N-terminal domain; Region: HipA_N; pfam07805 257310013251 HipA-like C-terminal domain; Region: HipA_C; pfam07804 257310013252 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 257310013253 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310013254 non-specific DNA binding site [nucleotide binding]; other site 257310013255 salt bridge; other site 257310013256 sequence-specific DNA binding site [nucleotide binding]; other site 257310013257 HMMPfam hit to PF01381, DE Helix-turn-helix, score 2e-09 257310013258 Predicted helix-turn-helix motif with score 1762.000, SD 5.19 at aa 51-72, sequence KTQRELAAATGMRQEAISRFEA 257310013259 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 257310013260 CoenzymeA binding site [chemical binding]; other site 257310013261 subunit interaction site [polypeptide binding]; other site 257310013262 PHB binding site; other site 257310013263 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 257310013264 5 probable transmembrane helices predicted for BB2723 by TMHMM2.0 at aa 11-33, 46-68, 141-163, 170-192 and 207-226 257310013265 HMMPfam hit to PF03741, DE Integral membrane protein TerC family, score 1.7e-43 257310013266 Signal peptide predicted for BB2724 by SignalP 2.0 HMM (Signal peptide probabilty 0.819) with cleavage site probability 0.574 between residues 23 and 24; signal peptide 257310013267 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310013268 classical (c) SDRs; Region: SDR_c; cd05233 257310013269 NAD(P) binding site [chemical binding]; other site 257310013270 active site 257310013271 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.9e-75 257310013272 PS00061 Short-chain dehydrogenases/reductases family signature. 257310013273 Signal peptide predicted for BB2725 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.925 between residues 26 and 27; signal peptide 257310013274 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013275 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.1e-107 257310013276 Signal peptide predicted for BB2726 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.986 between residues 27 and 28; signal peptide 257310013277 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 257310013278 Signal peptide predicted for BB2727 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.663 between residues 25 and 26; signal peptide 257310013279 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 257310013280 Uncharacterized conserved protein [Function unknown]; Region: COG1262 257310013281 HMMPfam hit to PF03781, DE Domain of unknown function (DUF323), score 1.1e-97 257310013282 MoxR-like ATPases [General function prediction only]; Region: COG0714 257310013283 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310013284 Walker A motif; other site 257310013285 ATP binding site [chemical binding]; other site 257310013286 Walker B motif; other site 257310013287 arginine finger; other site 257310013288 Protein of unknown function DUF58; Region: DUF58; pfam01882 257310013289 HMMPfam hit to PF01882, DE Protein of unknown function DUF58, score 0.0017 257310013290 1 probable transmembrane helix predicted for BB2731 by TMHMM2.0 at aa 26-48 257310013291 Signal peptide predicted for BB2732 by SignalP 2.0 HMM (Signal peptide probabilty 0.779) with cleavage site probability 0.315 between residues 27 and 28; signal peptide 257310013292 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 257310013293 metal ion-dependent adhesion site (MIDAS); other site 257310013294 HMMPfam hit to PF00092, DE von Willebrand factor type A domain, score 0.00018 257310013295 1 probable transmembrane helix predicted for BB2732 by TMHMM2.0 at aa 298-320 257310013296 von Willebrand factor type A domain; Region: VWA_2; pfam13519 257310013297 HMMPfam hit to PF00515, DE TPR Domain, score 0.00089 257310013298 Signal peptide predicted for BB2734 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.784 between residues 23 and 24; signal peptide 257310013299 Oxygen tolerance; Region: BatD; pfam13584 257310013300 PS00017 ATP/GTP-binding site motif A (P-loop). 257310013301 1 probable transmembrane helix predicted for BB2734 by TMHMM2.0 at aa 297-319 257310013302 Signal peptide predicted for BB2735 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.702 between residues 35 and 36; signal peptide 257310013303 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 257310013304 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310013305 motif II; other site 257310013306 1 probable transmembrane helix predicted for BB2735 by TMHMM2.0 at aa 12-31 257310013307 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310013308 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 0.013 257310013309 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310013310 Signal peptide predicted for BB2736 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.956 between residues 25 and 26; signal peptide 257310013311 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 257310013312 Sulfatase; Region: Sulfatase; pfam00884 257310013313 HMMPfam hit to PF00884, DE Sulfatase, score 2.5e-60 257310013314 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 257310013315 13 probable transmembrane helices predicted for BB2737 by TMHMM2.0 at aa 21-43, 58-80, 93-115, 130-152, 165-187, 191-213, 243-265, 275-297, 304-326, 357-379, 392-414, 418-440 and 447-469 257310013316 Signal peptide predicted for BB2738 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.609 between residues 26 and 27; signal peptide 257310013317 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310013318 Signal peptide predicted for BB2739 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.983 between residues 28 and 29; signal peptide 257310013319 Histidine kinase; Region: HisKA_3; pfam07730 257310013320 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310013321 ATP binding site [chemical binding]; other site 257310013322 Mg2+ binding site [ion binding]; other site 257310013323 G-X-G motif; other site 257310013324 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 1.3e-09 257310013325 8 probable transmembrane helices predicted for BB2739 by TMHMM2.0 at aa 12-29, 194-213, 218-240, 250-271, 284-302, 312-334, 341-360 and 370-389 257310013326 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 257310013327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310013328 active site 257310013329 phosphorylation site [posttranslational modification] 257310013330 intermolecular recognition site; other site 257310013331 dimerization interface [polypeptide binding]; other site 257310013332 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310013333 DNA binding residues [nucleotide binding] 257310013334 dimerization interface [polypeptide binding]; other site 257310013335 HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 2.1e-12 257310013336 PS00622 Bacterial regulatory proteins, luxR family signature. 257310013337 Predicted helix-turn-helix motif with score 1061.000, SD 2.80 at aa 178-199, sequence YTYDEIARDLEVSRHTVQTFVR 257310013338 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 3.8e-23 257310013339 Signal peptide predicted for BB2741 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.993 between residues 37 and 38; signal peptide 257310013340 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310013341 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310013342 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310013343 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310013344 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 2.3e-32 257310013345 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310013346 non-specific DNA binding site [nucleotide binding]; other site 257310013347 salt bridge; other site 257310013348 sequence-specific DNA binding site [nucleotide binding]; other site 257310013349 HMMPfam hit to PF01381, DE Helix-turn-helix, score 3.5e-08 257310013350 Predicted helix-turn-helix motif with score 2270.000, SD 6.92 at aa 48-69, sequence MSQTEFAKAIHVSVRTLQNWEQ 257310013351 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 257310013352 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 257310013353 glutathionine S-transferase; Provisional; Region: PRK10542 257310013354 C-terminal domain interface [polypeptide binding]; other site 257310013355 GSH binding site (G-site) [chemical binding]; other site 257310013356 dimer interface [polypeptide binding]; other site 257310013357 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 257310013358 dimer interface [polypeptide binding]; other site 257310013359 N-terminal domain interface [polypeptide binding]; other site 257310013360 substrate binding pocket (H-site) [chemical binding]; other site 257310013361 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 6.8e-12 257310013362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310013363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310013364 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310013365 dimerization interface [polypeptide binding]; other site 257310013366 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.3e-31 257310013367 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.7e-11 257310013368 PS00044 Bacterial regulatory proteins, lysR family signature. 257310013369 Predicted helix-turn-helix motif with score 1335.000, SD 3.73 at aa 27-48, sequence GTLRKAARRLSISQPAATAMLS 257310013370 Signal peptide predicted for BB2746 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.850 between residues 22 and 23; signal peptide 257310013371 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013372 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.4e-77 257310013373 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 257310013374 Sulfatase; Region: Sulfatase; pfam00884 257310013375 HMMPfam hit to PF00884, DE Sulfatase, score 5.8e-88 257310013376 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 257310013377 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 257310013378 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 257310013379 HMMPfam hit to PF00296, DE Luciferase-like monooxygenase, score 2.9e-25 257310013380 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 257310013381 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 257310013382 FMN binding site [chemical binding]; other site 257310013383 active site 257310013384 substrate binding site [chemical binding]; other site 257310013385 catalytic residue [active] 257310013386 HMMPfam hit to PF00724, DE NADH:flavin oxidoreductase / NADH oxidase family, score 2.2e-75 257310013387 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 257310013388 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 257310013389 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 257310013390 HMMPfam hit to PF00296, DE Luciferase-like monooxygenase, score 3.3e-08 257310013391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310013392 LysR family transcriptional regulator; Provisional; Region: PRK14997 257310013393 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 257310013394 putative effector binding pocket; other site 257310013395 dimerization interface [polypeptide binding]; other site 257310013396 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5.2e-42 257310013397 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.5e-14 257310013398 PS00044 Bacterial regulatory proteins, lysR family signature. 257310013399 Predicted helix-turn-helix motif with score 1273.000, SD 3.52 at aa 76-97, sequence GSFTSAAATLGVTRSAVGKSVA 257310013400 hypothetical protein; Provisional; Region: PRK07236 257310013401 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 257310013402 Signal peptide predicted for BB2753 by SignalP 2.0 HMM (Signal peptide probabilty 0.947) with cleavage site probability 0.634 between residues 16 and 17; signal peptide 257310013403 HMMPfam hit to PF01360, DE Monooxygenase, score 5.2e-11 257310013404 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310013405 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 257310013406 dimer interface [polypeptide binding]; other site 257310013407 putative metal binding site [ion binding]; other site 257310013408 HMMPfam hit to PF00903, DE Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily, score 1.3e-09 257310013409 Signal peptide predicted for BB2755 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.939 between residues 26 and 27; signal peptide 257310013410 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310013411 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 257310013412 putative ligand binding site [chemical binding]; other site 257310013413 Signal peptide predicted for BB2756 by SignalP 2.0 HMM (Signal peptide probabilty 0.915) with cleavage site probability 0.856 between residues 51 and 52; signal peptide 257310013414 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310013415 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310013416 TM-ABC transporter signature motif; other site 257310013417 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.1e-44 257310013418 8 probable transmembrane helices predicted for BB2756 by TMHMM2.0 at aa 10-32, 37-59, 63-85, 97-119, 139-161, 190-212, 227-249 and 256-278 257310013419 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310013420 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310013421 TM-ABC transporter signature motif; other site 257310013422 9 probable transmembrane helices predicted for BB2757 by TMHMM2.0 at aa 21-43, 47-66, 68-90, 95-117, 124-146, 180-202, 223-245, 265-287 and 300-322 257310013423 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.7e-15 257310013424 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310013425 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310013426 Walker A/P-loop; other site 257310013427 ATP binding site [chemical binding]; other site 257310013428 Q-loop/lid; other site 257310013429 ABC transporter signature motif; other site 257310013430 Walker B; other site 257310013431 D-loop; other site 257310013432 H-loop/switch region; other site 257310013433 HMMPfam hit to PF00005, DE ABC transporter score 9.8e-50 257310013434 PS00017 ATP/GTP-binding site motif A (P-loop). 257310013435 PS00211 ABC transporters family signature. 257310013436 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310013437 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310013438 Walker A/P-loop; other site 257310013439 ATP binding site [chemical binding]; other site 257310013440 Q-loop/lid; other site 257310013441 ABC transporter signature motif; other site 257310013442 Walker B; other site 257310013443 D-loop; other site 257310013444 H-loop/switch region; other site 257310013445 HMMPfam hit to PF00005, DE ABC transporter score 2e-52 257310013446 PS00017 ATP/GTP-binding site motif A (P-loop). 257310013447 PS00211 ABC transporters family signature. 257310013448 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310013449 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310013450 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 3.3e-09 257310013451 PS01081 Bacterial regulatory proteins, tetR family signature. 257310013452 Predicted helix-turn-helix motif with score 2009.000, SD 6.03 at aa 15-36, sequence GSTRELAKQIGVTQPLLYRYFS 257310013453 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310013454 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310013455 putative DNA binding site [nucleotide binding]; other site 257310013456 putative Zn2+ binding site [ion binding]; other site 257310013457 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310013458 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 3.4e-08 257310013459 Predicted helix-turn-helix motif with score 1606.000, SD 4.66 at aa 31-52, sequence VTLSDLAAELALAPSTIHRLLA 257310013460 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310013461 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310013462 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 2e-54 257310013463 lipid-transfer protein; Provisional; Region: PRK08256 257310013464 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310013465 active site 257310013466 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 1.1e-18 257310013467 PS00737 Thiolases signature 2. 257310013468 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 5.3e-08 257310013469 DUF35 OB-fold domain; Region: DUF35; pfam01796 257310013470 Signal peptide predicted for BB2765 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.992 between residues 39 and 40; signal peptide 257310013471 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013472 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.2e-94 257310013473 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310013474 classical (c) SDRs; Region: SDR_c; cd05233 257310013475 NAD(P) binding site [chemical binding]; other site 257310013476 active site 257310013477 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.7e-58 257310013478 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 257310013479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310013480 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 257310013481 putative dimerization interface [polypeptide binding]; other site 257310013482 putative substrate binding pocket [chemical binding]; other site 257310013483 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.7e-42 257310013484 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310013485 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.2e-28 257310013486 PS00044 Bacterial regulatory proteins, lysR family signature. 257310013487 Predicted helix-turn-helix motif with score 1853.000, SD 5.50 at aa 11-32, sequence RSFSRAAERLHISQPPLSQQIK 257310013488 Signal peptide predicted for BB2768 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.502 between residues 25 and 26; signal peptide 257310013489 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013490 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.6e-100 257310013491 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310013492 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310013493 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.3e-66 257310013494 enoyl-CoA hydratase; Provisional; Region: PRK06494 257310013495 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310013496 substrate binding site [chemical binding]; other site 257310013497 oxyanion hole (OAH) forming residues; other site 257310013498 trimer interface [polypeptide binding]; other site 257310013499 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 4.4e-44 257310013500 PS00213 Lipocalin signature. 257310013501 enoyl-CoA hydratase; Provisional; Region: PRK09245 257310013502 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310013503 substrate binding site [chemical binding]; other site 257310013504 oxyanion hole (OAH) forming residues; other site 257310013505 trimer interface [polypeptide binding]; other site 257310013506 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1e-47 257310013507 Signal peptide predicted for BB2772 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.991 between residues 25 and 26; signal peptide 257310013508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310013509 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.1e-71 257310013510 enoyl-CoA hydratase; Provisional; Region: PRK09076 257310013511 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310013512 substrate binding site [chemical binding]; other site 257310013513 oxyanion hole (OAH) forming residues; other site 257310013514 trimer interface [polypeptide binding]; other site 257310013515 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 257310013516 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310013517 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310013518 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310013519 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 6.5e-49 257310013520 PS00166 enoyl-CoA hydratase signature. 257310013521 HMMPfam hit to PF02737, DE 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain, score 1.1e-59 257310013522 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 3.1e-27 257310013523 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 0.00017 257310013524 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 257310013525 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 257310013526 dimer interface [polypeptide binding]; other site 257310013527 active site 257310013528 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 2e-84 257310013529 PS00098 Thiolases acyl-enzyme intermediate signature. 257310013530 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 3.5e-54 257310013531 PS00737 Thiolases signature 2. 257310013532 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 257310013533 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 257310013534 putative active site [active] 257310013535 metal binding site [ion binding]; metal-binding site 257310013536 HMMPfam hit to PF00465, DE Iron-containing alcohol dehydrogenase, score 2.7e-84 257310013537 PS00913 Iron-containing alcohol dehydrogenases signature 1. 257310013538 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 257310013539 active site 257310013540 HMMPfam hit to PF03061, DE 4-hydroxybenzoyl-CoA thioesterase, score 9.6e-27 257310013541 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 257310013542 Signal peptide predicted for BB2777 by SignalP 2.0 HMM (Signal peptide probabilty 0.969) with cleavage site probability 0.771 between residues 19 and 20; signal peptide 257310013543 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257310013544 hydroxyglutarate oxidase; Provisional; Region: PRK11728 257310013545 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 1.5e-05 257310013546 Signal peptide predicted for BB2778 by SignalP 2.0 HMM (Signal peptide probabilty 0.975) with cleavage site probability 0.617 between residues 27 and 28; signal peptide 257310013547 salicylate hydroxylase; Provisional; Region: PRK08163 257310013548 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 257310013549 HMMPfam hit to PF01360, DE Monooxygenase, score 2.1e-38 257310013550 Signal peptide predicted for BB2779 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.866 between residues 33 and 34; signal peptide 257310013551 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013552 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.3e-111 257310013553 Signal peptide predicted for BB2780 by SignalP 2.0 HMM (Signal peptide probabilty 0.802) with cleavage site probability 0.666 between residues 23 and 24; signal peptide 257310013554 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310013555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310013556 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310013557 dimerization interface [polypeptide binding]; other site 257310013558 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 6.7e-26 257310013559 Predicted helix-turn-helix motif with score 1328.000, SD 3.71 at aa 18-39, sequence ASFTKAAEQLHISQAGLSAMVR 257310013560 PS00044 Bacterial regulatory proteins, lysR family signature. 257310013561 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.8e-26 257310013562 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 257310013563 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 257310013564 HMMPfam hit to PF03358, DE NADPH-dependent FMN reductase, score 7.9e-57 257310013565 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 257310013566 ArsC family; Region: ArsC; pfam03960 257310013567 catalytic residues [active] 257310013568 HMMPfam hit to PF03960, DE ArsC family, score 3e-28 257310013569 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310013570 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310013571 putative substrate translocation pore; other site 257310013572 10 probable transmembrane helices predicted for BB2783 by TMHMM2.0 at aa 7-29, 44-66, 71-93, 97-119, 132-154, 213-230, 243-265, 285-307, 314-336 and 364-386 257310013573 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310013574 putative DNA binding site [nucleotide binding]; other site 257310013575 putative Zn2+ binding site [ion binding]; other site 257310013576 Predicted helix-turn-helix motif with score 1018.000, SD 2.65 at aa 43-64, sequence LTPSVMADGLGIARNALSFHLK 257310013577 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 257310013578 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 257310013579 active site 257310013580 putative substrate binding pocket [chemical binding]; other site 257310013581 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 257310013582 Signal peptide predicted for BB2786 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.975 between residues 24 and 25; signal peptide 257310013583 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013584 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-95 257310013585 Signal peptide predicted for BB2787 by SignalP 2.0 HMM (Signal peptide probabilty 0.625) with cleavage site probability 0.538 between residues 28 and 29; signal peptide 257310013586 short chain dehydrogenase; Provisional; Region: PRK12827 257310013587 dihydropteridine reductase (DHPR), classical (c) SDRs; Region: DHPR_SDR_c_like; cd05334 257310013588 NAD binding site [chemical binding]; other site 257310013589 homodimer interface [polypeptide binding]; other site 257310013590 active site 257310013591 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00106, DE short chain dehydrogenase, score 7.8e-31 257310013592 PS00061 Short-chain dehydrogenases/reductases family signature. 257310013593 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310013594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310013595 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310013596 dimerization interface [polypeptide binding]; other site 257310013597 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.7e-11 257310013598 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.2e-20 257310013599 PS00044 Bacterial regulatory proteins, lysR family signature. 257310013600 Predicted helix-turn-helix motif with score 1391.000, SD 3.92 at aa 23-44, sequence RSFTRAAETLHVTQAGLSSMIN 257310013601 Signal peptide predicted for BB2789 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.637 between residues 20 and 21; signal peptide 257310013602 3 probable transmembrane helices predicted for BB2789 by TMHMM2.0 at aa 7-26, 39-61 and 74-96 257310013603 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 257310013604 PAS fold; Region: PAS_3; pfam08447 257310013605 putative active site [active] 257310013606 heme pocket [chemical binding]; other site 257310013607 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310013608 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310013609 metal binding site [ion binding]; metal-binding site 257310013610 active site 257310013611 I-site; other site 257310013612 HMMPfam hit to PF00990, DE GGDEF domain, score 2.1e-65 257310013613 HMMPfam hit to PF00785, DE PAC motif, score 1.4e-09 257310013614 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 257310013615 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 257310013616 active site 257310013617 dimer interface [polypeptide binding]; other site 257310013618 metal binding site [ion binding]; metal-binding site 257310013619 HMMPfam hit to PF00465, DE Iron-containing alcohol dehydrogenase, score 6.8e-16 257310013620 PS00215 Mitochondrial energy transfer proteins signature. 257310013621 PS00060 Iron-containing alcohol dehydrogenases signature 2. 257310013622 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 257310013623 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 257310013624 dimer interface [polypeptide binding]; other site 257310013625 active site residues [active] 257310013626 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 257310013627 HMMPfam hit to PF01957, DE Protein of unknown function DUF107, score 7.8e-149 257310013628 4 probable transmembrane helices predicted for BB2792 by TMHMM2.0 at aa 308-330, 340-362, 367-389 and 409-431 257310013629 Signal peptide predicted for BB2793 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.989 between residues 22 and 23; signal peptide 257310013630 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 257310013631 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 257310013632 2 probable transmembrane helices predicted for BB2793 by TMHMM2.0 at aa 4-26 and 33-55 257310013633 HMMPfam hit to PF01145, DE SPFH domain / Band 7 family, score 7.4e-74 257310013634 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310013635 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310013636 Walker A/P-loop; other site 257310013637 ATP binding site [chemical binding]; other site 257310013638 Q-loop/lid; other site 257310013639 ABC transporter signature motif; other site 257310013640 Walker B; other site 257310013641 D-loop; other site 257310013642 H-loop/switch region; other site 257310013643 HMMPfam hit to PF00005, DE ABC transporter score 1.6e-64 257310013644 PS00211 ABC transporters family signature. 257310013645 PS00017 ATP/GTP-binding site motif A (P-loop). 257310013646 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310013647 dimer interface [polypeptide binding]; other site 257310013648 conserved gate region; other site 257310013649 putative PBP binding loops; other site 257310013650 ABC-ATPase subunit interface; other site 257310013651 4 probable transmembrane helices predicted for BB2796 by TMHMM2.0 at aa 15-37, 50-72, 87-106 and 182-204 257310013652 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4.1e-18 257310013653 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310013654 Signal peptide predicted for BB2797 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.501 between residues 22 and 23; signal peptide 257310013655 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257310013656 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310013657 substrate binding pocket [chemical binding]; other site 257310013658 membrane-bound complex binding site; other site 257310013659 hinge residues; other site 257310013660 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 1.7e-74 257310013661 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310013662 periplasmic nitrate reductase, NapE protein; Region: nitrate_rd_NapE; TIGR02973 257310013663 1 probable transmembrane helix predicted for BB2798 by TMHMM2.0 at aa 17-39 257310013664 NapD protein; Region: NapD; pfam03927 257310013665 HMMPfam hit to PF03927, DE NapD protein, score 7.7e-22 257310013666 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 257310013667 Signal peptide predicted for BB2800 by SignalP 2.0 HMM (Signal peptide probabilty 0.964) with cleavage site probability 0.672 between residues 25 and 26; signal peptide 257310013668 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 257310013669 [4Fe-4S] binding site [ion binding]; other site 257310013670 molybdopterin cofactor binding site; other site 257310013671 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 257310013672 molybdopterin cofactor binding site; other site 257310013673 HMMPfam hit to PF00384, DE Molybdopterin oxidoreductase, score 5.8e-214 257310013674 PS00551 Prokaryotic molybdopterin oxidoreductases signature 1. 257310013675 PS00192 Cytochrome b/b6 heme-ligand signature. 257310013676 HMMPfam hit to PF01568, DE Molydopterin dinucleotide binding domain, score 4.2e-41 257310013677 Signal peptide predicted for BB2801 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 20 and 21; signal peptide 257310013678 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 257310013679 HMMPfam hit to PF03892, DE Nitrate reductase cytochrome c-type subunit (NapB), score 1.9e-50 257310013680 PS00190 Cytochrome c family heme-binding site signature. 257310013681 PS00190 Cytochrome c family heme-binding site signature. 257310013682 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 257310013683 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 257310013684 HMMPfam hit to PF03264, DE NapC/NirT cytochrome c family, N-terminal region, score 1.1e-111 257310013685 1 probable transmembrane helix predicted for BB2802 by TMHMM2.0 at aa 20-42 257310013686 PS00190 Cytochrome c family heme-binding site signature. 257310013687 PS00190 Cytochrome c family heme-binding site signature. 257310013688 PS00190 Cytochrome c family heme-binding site signature. 257310013689 PS00190 Cytochrome c family heme-binding site signature. 257310013690 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310013691 Walker A/P-loop; other site 257310013692 ATP binding site [chemical binding]; other site 257310013693 ABC transporter; Region: ABC_tran; pfam00005 257310013694 Q-loop/lid; other site 257310013695 ABC transporter signature motif; other site 257310013696 Walker B; other site 257310013697 D-loop; other site 257310013698 HMMPfam hit to PF00005, DE ABC transporter score 1.1e-33 257310013699 PS00017 ATP/GTP-binding site motif A (P-loop). 257310013700 CcmB protein; Region: CcmB; cl17444 257310013701 HMMPfam hit to PF03379, DE CcmB protein, score 5.2e-48 257310013702 5 probable transmembrane helices predicted for BB2804 by TMHMM2.0 at aa 17-39, 69-91, 98-120, 130-152 and 164-186 257310013703 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 257310013704 HMMPfam hit to PF01578, DE Cytochrome C assembly protein, score 2.1e-32 257310013705 6 probable transmembrane helices predicted for BB2805 by TMHMM2.0 at aa 39-61, 76-98, 111-128, 138-160, 173-195 and 215-237 257310013706 1 probable transmembrane helix predicted for BB2806 by TMHMM2.0 at aa 15-37 257310013707 Signal peptide predicted for BB2807 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.957 between residues 45 and 46; signal peptide 257310013708 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 257310013709 HMMPfam hit to PF03100, DE CcmE, score 2.6e-57 257310013710 1 probable transmembrane helix predicted for BB2807 by TMHMM2.0 at aa 9-31 257310013711 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 257310013712 Signal peptide predicted for BB2808 by SignalP 2.0 HMM (Signal peptide probabilty 0.895) with cleavage site probability 0.357 between residues 27 and 28; signal peptide 257310013713 15 probable transmembrane helices predicted for BB2808 by TMHMM2.0 at aa 5-27, 40-62, 95-114, 121-143, 175-197, 210-232, 247-264, 276-298, 313-331, 352-374, 389-411, 424-446, 451-473, 494-516 and 620-639 257310013714 HMMPfam hit to PF01578, DE Cytochrome C assembly protein, score 2.8e-37 257310013715 Signal peptide predicted for BB2809 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.464 between residues 21 and 22; signal peptide 257310013716 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 257310013717 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 257310013718 catalytic residues [active] 257310013719 central insert; other site 257310013720 1 probable transmembrane helix predicted for BB2809 by TMHMM2.0 at aa 4-23 257310013721 PS00194 Thioredoxin family active site. 257310013722 Signal peptide predicted for BB2810 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.977 between residues 20 and 21; signal peptide 257310013723 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 257310013724 HMMPfam hit to PF03918, DE Cytochrome C biogenesis protein, score 6.5e-34 257310013725 2 probable transmembrane helices predicted for BB2810 by TMHMM2.0 at aa 7-24 and 93-115 257310013726 Signal peptide predicted for BB2811 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.602 between residues 35 and 36; signal peptide 257310013727 TPR motif; other site 257310013728 Tetratricopeptide repeat; Region: TPR_8; pfam13181 257310013729 2 probable transmembrane helices predicted for BB2811 by TMHMM2.0 at aa 4-21 and 95-117 257310013730 HMMPfam hit to PF00515, DE TPR Domain, score 5e-05 257310013731 HMMPfam hit to PF00515, DE TPR Domain, score 8.5 257310013732 Signal peptide predicted for BB2812 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.971 between residues 26 and 27; signal peptide 257310013733 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 257310013734 dimer interface [polypeptide binding]; other site 257310013735 putative inhibitory loop; other site 257310013736 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310013737 homotrimer interaction site [polypeptide binding]; other site 257310013738 putative active site [active] 257310013739 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 3.3e-30 257310013740 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 257310013741 Signal peptide predicted for BB2814 by SignalP 2.0 HMM (Signal peptide probabilty 0.962) with cleavage site probability 0.386 between residues 16 and 17; signal peptide 257310013742 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 257310013743 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 257310013744 HMMPfam hit to PF02558, DE Ketopantoate reductase PanE/ApbA, score 9.3e-29 257310013745 HMMPfam hit to PF02254, DE TrkA-N domain, score 0.00059 257310013746 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 257310013747 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 257310013748 putative active site pocket [active] 257310013749 metal binding site [ion binding]; metal-binding site 257310013750 HMMPfam hit to PF01188, DE Mandelate racemase / muconate lactonizing enzyme, C-terminal domain, score 0.00014 257310013751 Signal peptide predicted for BB2816 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.593 between residues 30 and 31; signal peptide 257310013752 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013753 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.7e-96 257310013754 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 257310013755 substrate binding site [chemical binding]; other site 257310013756 ligand binding site [chemical binding]; other site 257310013757 HMMPfam hit to PF00330, DE Aconitase family (aconitate hydratase), score 1.4e-164 257310013758 PS00450 Aconitase family signature 1. 257310013759 PS01244 Aconitase family signature 2. 257310013760 3-isopropylmalate dehydratase, small subunit; Region: leuD; TIGR00171 257310013761 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 257310013762 substrate binding site [chemical binding]; other site 257310013763 HMMPfam hit to PF00694, DE Aconitase C-terminal domain, score 1.5e-41 257310013764 Transcriptional regulators [Transcription]; Region: PurR; COG1609 257310013765 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257310013766 DNA binding site [nucleotide binding] 257310013767 domain linker motif; other site 257310013768 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 257310013769 dimerization interface [polypeptide binding]; other site 257310013770 ligand binding site [chemical binding]; other site 257310013771 HMMPfam hit to PF00356, DE Bacterial regulatory proteins, lacI family, score 6.5e-06 257310013772 HMMPfam hit to PF00532, DE Periplasmic binding proteins and sugar binding domain of the LacI family, score 4.6e-08 257310013773 Signal peptide predicted for BB2820 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.969 between residues 23 and 24; signal peptide 257310013774 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013775 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-67 257310013776 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310013777 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310013778 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310013779 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 4.3e-51 257310013780 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 257310013781 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 257310013782 active site 257310013783 citrylCoA binding site [chemical binding]; other site 257310013784 oxalacetate binding site [chemical binding]; other site 257310013785 coenzyme A binding site [chemical binding]; other site 257310013786 catalytic triad [active] 257310013787 Signal peptide predicted for BB2823 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 26 and 27; signal peptide 257310013788 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310013789 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-75 257310013790 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 257310013791 CoA binding domain; Region: CoA_binding_2; pfam13380 257310013792 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 257310013793 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 257310013794 HMMPfam hit to PF02629, DE CoA binding domain, score 3e-13 257310013795 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310013796 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310013797 DNA-binding site [nucleotide binding]; DNA binding site 257310013798 FCD domain; Region: FCD; pfam07729 257310013799 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.2e-10 257310013800 PS00043 Bacterial regulatory proteins, gntR family signature. 257310013801 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 257310013802 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 257310013803 Predicted flavoprotein [General function prediction only]; Region: COG0431 257310013804 HMMPfam hit to PF03358, DE NADPH-dependent FMN reductase, score 3e-35 257310013805 LysR family transcriptional regulator; Provisional; Region: PRK14997 257310013806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310013807 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 257310013808 putative effector binding pocket; other site 257310013809 putative dimerization interface [polypeptide binding]; other site 257310013810 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.7e-13 257310013811 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.9e-43 257310013812 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 257310013813 RNase_H superfamily; Region: RNase_H_2; pfam13482 257310013814 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 257310013815 Part of AAA domain; Region: AAA_19; pfam13245 257310013816 AAA domain; Region: AAA_12; pfam13087 257310013817 PS00017 ATP/GTP-binding site motif A (P-loop). 257310013818 Signal peptide predicted for BB2830 by SignalP 2.0 HMM (Signal peptide probabilty 0.988) with cleavage site probability 0.665 between residues 19 and 20; signal peptide 257310013819 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 257310013820 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310013821 Autotransporter beta-domain; Region: Autotransporter; smart00869 257310013822 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 1.3e-36 257310013823 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310013824 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 257310013825 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 257310013826 FAD binding pocket [chemical binding]; other site 257310013827 FAD binding motif [chemical binding]; other site 257310013828 phosphate binding motif [ion binding]; other site 257310013829 NAD binding pocket [chemical binding]; other site 257310013830 Predicted transcriptional regulators [Transcription]; Region: COG1695 257310013831 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 257310013832 HMMPfam hit to PF03551, DE Transcriptional regulator PadR-like family, score 4e-15 257310013833 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 257310013834 putative catalytic site [active] 257310013835 putative metal binding site [ion binding]; other site 257310013836 putative phosphate binding site [ion binding]; other site 257310013837 HMMPfam hit to PF03372, DE Endonuclease/Exonuclease/phosphatase family, score 1.2e-19 257310013838 cardiolipin synthase 2; Provisional; Region: PRK11263 257310013839 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 257310013840 putative active site [active] 257310013841 catalytic site [active] 257310013842 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 257310013843 putative active site [active] 257310013844 catalytic site [active] 257310013845 HMMPfam hit to PF00614, DE Phospholipase D. Active site motif, score 3.9e-05 257310013846 HMMPfam hit to PF00614, DE Phospholipase D. Active site motif, score 2.4 257310013847 Predicted integral membrane protein [Function unknown]; Region: COG0392 257310013848 8 probable transmembrane helices predicted for BB2836 by TMHMM2.0 at aa 15-32, 53-75, 85-107, 128-150, 165-187, 208-230, 240-262 and 283-305 257310013849 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 257310013850 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 257310013851 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257310013852 PS00708 Prolyl endopeptidase family serine active site. 257310013853 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 257310013854 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 257310013855 active site 257310013856 DNA binding site [nucleotide binding] 257310013857 Int/Topo IB signature motif; other site 257310013858 catalytic residues [active] 257310013859 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 257310013860 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 257310013861 Signal peptide predicted for BB2844 by SignalP 2.0 HMM (Signal peptide probabilty 0.644) with cleavage site probability 0.643 between residues 24 and 25; signal peptide 257310013862 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 257310013863 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 257310013864 putative DNA binding site [nucleotide binding]; other site 257310013865 putative homodimer interface [polypeptide binding]; other site 257310013866 HMMPfam hit to PF02735, DE Ku70/Ku80 beta-barrel domain, score 1.2e-45 257310013867 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 257310013868 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 257310013869 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 257310013870 active site 257310013871 DNA binding site [nucleotide binding] 257310013872 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 257310013873 DNA binding site [nucleotide binding] 257310013874 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 257310013875 nucleotide binding site [chemical binding]; other site 257310013876 HMMPfam hit to PF01068, DE ATP dependent DNA ligase domain, score 3.9e-23 257310013877 PS00697 ATP-dependent DNA ligase AMP-binding site. 257310013878 short chain dehydrogenase; Provisional; Region: PRK06701 257310013879 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 257310013880 NAD binding site [chemical binding]; other site 257310013881 metal binding site [ion binding]; metal-binding site 257310013882 active site 257310013883 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.5e-64 257310013884 PS00061 Short-chain dehydrogenases/reductases family signature. 257310013885 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310013886 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 257310013887 Signal peptide predicted for BB2848 by SignalP 2.0 HMM (Signal peptide probabilty 0.823) with cleavage site probability 0.358 between residues 44 and 45; signal peptide 257310013888 2 probable transmembrane helices predicted for BB2848 by TMHMM2.0 at aa 83-105 and 112-134 257310013889 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 257310013890 Predicted membrane protein [Function unknown]; Region: COG2323 257310013891 1 probable transmembrane helix predicted for BB2851 by TMHMM2.0 at aa 7-29 257310013892 PRC-barrel domain; Region: PRC; pfam05239 257310013893 BON domain; Region: BON; pfam04972 257310013894 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 257310013895 thiamine pyrophosphate protein; Provisional; Region: PRK08273 257310013896 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 257310013897 PYR/PP interface [polypeptide binding]; other site 257310013898 dimer interface [polypeptide binding]; other site 257310013899 tetramer interface [polypeptide binding]; other site 257310013900 TPP binding site [chemical binding]; other site 257310013901 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310013902 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 257310013903 TPP-binding site [chemical binding]; other site 257310013904 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 1.8e-29 257310013905 PS00187 Thiamine pyrophosphate enzymes signature. 257310013906 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 1.5e-18 257310013907 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 3.4e-45 257310013908 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 257310013909 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310013910 active site 257310013911 phosphorylation site [posttranslational modification] 257310013912 intermolecular recognition site; other site 257310013913 dimerization interface [polypeptide binding]; other site 257310013914 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310013915 Walker A motif; other site 257310013916 ATP binding site [chemical binding]; other site 257310013917 Walker B motif; other site 257310013918 arginine finger; other site 257310013919 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 257310013920 HMMPfam hit to PF02954, DE Bacterial regulatory protein, Fis family, score 2e-13 257310013921 PS00688 Sigma-54 interaction domain C-terminal part signature. 257310013922 HMMPfam hit to PF00158, DE Sigma-54 interaction domain, score 4.3e-126 257310013923 PS00676 Sigma-54 interaction domain ATP-binding region B signature. 257310013924 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.8e-29 257310013925 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 257310013926 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310013927 Walker A motif; other site 257310013928 ATP binding site [chemical binding]; other site 257310013929 Walker B motif; other site 257310013930 HMMPfam hit to PF00158, DE Sigma-54 interaction domain, score 2.2e-103 257310013931 PS00675 Sigma-54 interaction domain ATP-binding region A signature. 257310013932 PS00676 Sigma-54 interaction domain ATP-binding region B signature. 257310013933 HMMPfam hit to PF02954, DE Bacterial regulatory protein, Fis family, score 2.5e-08 257310013934 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 257310013935 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 257310013936 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 257310013937 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 257310013938 HMMPfam hit to PF00309, DE Sigma-54 factors family, score 6.2e-158 257310013939 PS00717 Sigma-54 factors family signature 1. 257310013940 1 probable transmembrane helix predicted for BB2860 by TMHMM2.0 at aa 24-43 257310013941 glycogen synthase; Provisional; Region: glgA; PRK00654 257310013942 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 257310013943 ADP-binding pocket [chemical binding]; other site 257310013944 homodimer interface [polypeptide binding]; other site 257310013945 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310013946 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 1.5e-12 257310013947 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 257310013948 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 257310013949 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 257310013950 active site 257310013951 homodimer interface [polypeptide binding]; other site 257310013952 catalytic site [active] 257310013953 acceptor binding site [chemical binding]; other site 257310013954 HMMPfam hit to PF00128, DE alpha-amylase, catalytic domain, score 3.9e-06 257310013955 PS00019 Actinin-type actin-binding domain signature 1. 257310013956 trehalose synthase; Region: treS_nterm; TIGR02456 257310013957 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 257310013958 active site 257310013959 catalytic site [active] 257310013960 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 257310013961 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 257310013962 HMMPfam hit to PF00128, DE alpha-amylase, catalytic domain, score 3.1e-65 257310013963 glycogen branching enzyme; Provisional; Region: PRK05402 257310013964 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 257310013965 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 257310013966 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 257310013967 active site 257310013968 catalytic site [active] 257310013969 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 257310013970 HMMPfam hit to PF02922, DE Isoamylase N-terminal domain, score 0.0054 257310013971 HMMPfam hit to PF02922, DE Isoamylase N-terminal domain, score 5.8e-32 257310013972 HMMPfam hit to PF00128, DE alpha-amylase, catalytic domain, score 6.1e-08 257310013973 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 257310013974 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 257310013975 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 257310013976 active site 257310013977 catalytic site [active] 257310013978 HMMPfam hit to PF02922, DE Isoamylase N-terminal domain, score 1.4e-25 257310013979 HMMPfam hit to PF00128, DE alpha-amylase, catalytic domain, score 2.8e-09 257310013980 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 257310013981 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 257310013982 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 257310013983 catalytic site [active] 257310013984 active site 257310013985 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 257310013986 HMMPfam hit to PF02922, DE Isoamylase N-terminal domain, score 0.2 257310013987 HMMPfam hit to PF00128, DE alpha-amylase, catalytic domain, score 7.1e-12 257310013988 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 257310013989 HMMPfam hit to PF02446, DE 4-alpha-glucanotransferase, score 1.9e-62 257310013990 malto-oligosyltrehalose synthase; Region: trehalose_TreY; TIGR02401 257310013991 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 257310013992 active site 257310013993 catalytic site [active] 257310013994 HMMPfam hit to PF00128, DE alpha-amylase, catalytic domain, score 2.6e-07 257310013995 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 257310013996 GAF domain; Region: GAF; pfam01590 257310013997 GAF domain; Region: GAF_3; pfam13492 257310013998 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 257310013999 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 257310014000 putative active site [active] 257310014001 heme pocket [chemical binding]; other site 257310014002 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310014003 dimer interface [polypeptide binding]; other site 257310014004 phosphorylation site [posttranslational modification] 257310014005 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310014006 ATP binding site [chemical binding]; other site 257310014007 Mg2+ binding site [ion binding]; other site 257310014008 G-X-G motif; other site 257310014009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310014010 Response regulator receiver domain; Region: Response_reg; pfam00072 257310014011 active site 257310014012 phosphorylation site [posttranslational modification] 257310014013 intermolecular recognition site; other site 257310014014 dimerization interface [polypeptide binding]; other site 257310014015 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 2.9e-17 257310014016 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 2.5e-28 257310014017 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 9e-09 257310014018 HMMPfam hit to PF00989, DE PAS domain, score 3e-07 257310014019 HMMPfam hit to PF01590, DE GAF domain, score 0.0019 257310014020 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 257310014021 dimer interface [polypeptide binding]; other site 257310014022 pyridoxamine kinase; Validated; Region: PRK05756 257310014023 pyridoxal binding site [chemical binding]; other site 257310014024 ATP binding site [chemical binding]; other site 257310014025 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 257310014026 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 257310014027 catalytic residue [active] 257310014028 HMMPfam hit to PF01168, DE Uncharacterized protein family UPF0001, score 1.4e-53 257310014029 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 257310014030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310014031 DNA-binding site [nucleotide binding]; DNA binding site 257310014032 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310014033 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310014034 homodimer interface [polypeptide binding]; other site 257310014035 catalytic residue [active] 257310014036 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 4.9e-13 257310014037 PS00043 Bacterial regulatory proteins, gntR family signature. 257310014038 3 probable transmembrane helices predicted for BB2873 by TMHMM2.0 at aa 35-54, 69-91 and 98-120 257310014039 Signal peptide predicted for BB2874 by SignalP 2.0 HMM (Signal peptide probabilty 0.919) with cleavage site probability 0.361 between residues 22 and 23; signal peptide 257310014040 4 probable transmembrane helices predicted for BB2874 by TMHMM2.0 at aa 7-29, 39-61, 68-90 and 153-175 257310014041 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 257310014042 Ligand Binding Site [chemical binding]; other site 257310014043 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00582, DE Universal stress protein family, score 1.7e-08 257310014044 Signal peptide predicted for BB2876 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.792 between residues 24 and 25; signal peptide 257310014045 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 257310014046 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257310014047 active site 257310014048 catalytic tetrad [active] 257310014049 HMMPfam hit to PF00248, DE Aldo/keto reductase family, score 1.1e-09 257310014050 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 257310014051 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 257310014052 active site 257310014053 Zn binding site [ion binding]; other site 257310014054 HMMPfam hit to PF02868, DE Thermolysin metallopeptidase, alpha-helical domain, score 2.7e-27 257310014055 HMMPfam hit to PF01447, DE Thermolysin metallopeptidase, catalytic domain, score 3.6e-17 257310014056 PS00142 Neutral zinc metallopeptidases, zinc-binding region signature. 257310014057 DoxX; Region: DoxX; pfam07681 257310014058 4 probable transmembrane helices predicted for BB2879 by TMHMM2.0 at aa 7-26, 46-68, 73-95 and 105-127 257310014059 Signal peptide predicted for BB2880 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 24 and 25; signal peptide 257310014060 2 probable transmembrane helices predicted for BB2880 by TMHMM2.0 at aa 85-107 and 127-149 257310014061 Signal peptide predicted for BB2881 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 21 and 22; signal peptide 257310014062 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 257310014063 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 257310014064 catalytic triad [active] 257310014065 HMMPfam hit to PF00578, DE AhpC/TSA family, score 2.2e-14 257310014066 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 257310014067 ArsC family; Region: ArsC; pfam03960 257310014068 catalytic residues [active] 257310014069 HMMPfam hit to PF03960, DE ArsC family, score 6.2e-28 257310014070 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310014071 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310014072 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 4.7e-09 257310014073 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 257310014074 TPR repeat; Region: TPR_11; pfam13414 257310014075 binding surface 257310014076 TPR motif; other site 257310014077 HMMPfam hit to PF00515, DE TPR Domain, score 13 257310014078 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014079 HMMPfam hit to PF00515, DE TPR Domain, score 0.83 257310014080 Signal peptide predicted for BB2885 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.612 between residues 44 and 45; signal peptide 257310014081 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 257310014082 Signal peptide predicted for BB2886 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.971 between residues 24 and 25; signal peptide 257310014083 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 257310014084 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 257310014085 catalytic residues [active] 257310014086 dimer interface [polypeptide binding]; other site 257310014087 HMMPfam hit to PF00255, DE Glutathione peroxidase, score 2.4e-54 257310014088 PS00763 Glutathione peroxidases signature 2. 257310014089 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 257310014090 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 257310014091 C-terminal domain interface [polypeptide binding]; other site 257310014092 GSH binding site (G-site) [chemical binding]; other site 257310014093 dimer interface [polypeptide binding]; other site 257310014094 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 257310014095 N-terminal domain interface [polypeptide binding]; other site 257310014096 putative dimer interface [polypeptide binding]; other site 257310014097 active site 257310014098 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 1.2e-14 257310014099 HMMPfam hit to PF00043, DE Glutathione S-transferase, C-terminal domain, score 4.7e-10 257310014100 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 257310014101 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310014102 Coenzyme A binding pocket [chemical binding]; other site 257310014103 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 1.6e-18 257310014104 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 257310014105 HMMPfam hit to PF03099, DE Biotin/lipoate A/B protein ligase family, score 2e-28 257310014106 Signal peptide predicted for BB2892 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.346 between residues 46 and 47; signal peptide 257310014107 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 257310014108 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310014109 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 257310014110 HMMPfam hit to PF02666, DE Phosphatidylserine decarboxylase, score 5.4e-80 257310014111 Signal peptide predicted for BB2895 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.559 between residues 18 and 19; signal peptide 257310014112 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 257310014113 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 257310014114 phosphate binding site [ion binding]; other site 257310014115 HMMPfam hit to PF01070, DE FMN-dependent dehydrogenase, score 3.8e-120 257310014116 PS00557 FMN-dependent alpha-hydroxy acid dehydrogenases active site. 257310014117 Signal peptide predicted for BB2896 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.625 between residues 28 and 29; signal peptide 257310014118 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 257310014119 HMMPfam hit to PF03180, DE NLPA lipoprotein, score 2.2e-69 257310014120 RES domain; Region: RES; pfam08808 257310014121 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 257310014122 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 257310014123 Signal peptide predicted for BB2899 by SignalP 2.0 HMM (Signal peptide probabilty 0.888) with cleavage site probability 0.250 between residues 20 and 21; signal peptide 257310014124 Protein of unknown function (DUF423); Region: DUF423; pfam04241 257310014125 4 probable transmembrane helices predicted for BB2899 by TMHMM2.0 at aa 7-29, 39-61, 68-90 and 100-122 257310014126 Signal peptide predicted for BB2900 by SignalP 2.0 HMM (Signal peptide probabilty 0.894) with cleavage site probability 0.681 between residues 33 and 34; signal peptide 257310014127 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310014128 EamA-like transporter family; Region: EamA; pfam00892 257310014129 10 probable transmembrane helices predicted for BB2900 by TMHMM2.0 at aa 7-29, 44-66, 79-101, 105-122, 129-151, 155-177, 184-206, 216-235, 240-262 and 272-289 257310014130 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 9.2e-17 257310014131 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 2e-06 257310014132 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 257310014133 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 257310014134 C-terminal domain interface [polypeptide binding]; other site 257310014135 GSH binding site (G-site) [chemical binding]; other site 257310014136 dimer interface [polypeptide binding]; other site 257310014137 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 257310014138 dimer interface [polypeptide binding]; other site 257310014139 N-terminal domain interface [polypeptide binding]; other site 257310014140 substrate binding pocket (H-site) [chemical binding]; other site 257310014141 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 1.5e-08 257310014142 Signal peptide predicted for BB2902 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.746 between residues 28 and 29; signal peptide 257310014143 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 257310014144 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 257310014145 glutathionine S-transferase; Provisional; Region: PRK10542 257310014146 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 257310014147 C-terminal domain interface [polypeptide binding]; other site 257310014148 GSH binding site (G-site) [chemical binding]; other site 257310014149 dimer interface [polypeptide binding]; other site 257310014150 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 257310014151 dimer interface [polypeptide binding]; other site 257310014152 N-terminal domain interface [polypeptide binding]; other site 257310014153 substrate binding pocket (H-site) [chemical binding]; other site 257310014154 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 2e-09 257310014155 HMMPfam hit to PF00043, DE Glutathione S-transferase, C-terminal domain, score 1.4e-08 257310014156 Signal peptide predicted for BB2904 by SignalP 2.0 HMM (Signal peptide probabilty 0.927) with cleavage site probability 0.718 between residues 25 and 26; signal peptide 257310014157 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 257310014158 1 probable transmembrane helix predicted for BB2904 by TMHMM2.0 at aa 7-29 257310014159 HMMPfam hit to PF01177, DE Asp/Glu/Hydontoin racemase, score 8.5e-07 257310014160 PS00923 Aspartate and glutamate racemases signature 1. 257310014161 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310014162 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310014163 Walker A/P-loop; other site 257310014164 ATP binding site [chemical binding]; other site 257310014165 Q-loop/lid; other site 257310014166 ABC transporter signature motif; other site 257310014167 Walker B; other site 257310014168 D-loop; other site 257310014169 H-loop/switch region; other site 257310014170 HMMPfam hit to PF00005, DE ABC transporter score 6.1e-56 257310014171 PS00211 ABC transporters family signature. 257310014172 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014173 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 257310014174 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310014175 Walker A/P-loop; other site 257310014176 ATP binding site [chemical binding]; other site 257310014177 Q-loop/lid; other site 257310014178 ABC transporter signature motif; other site 257310014179 Walker B; other site 257310014180 D-loop; other site 257310014181 H-loop/switch region; other site 257310014182 HMMPfam hit to PF00005, DE ABC transporter score 4.5e-59 257310014183 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014184 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 257310014185 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310014186 TM-ABC transporter signature motif; other site 257310014187 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 4.6e-56 257310014188 11 probable transmembrane helices predicted for BB2907 by TMHMM2.0 at aa 7-29, 44-63, 84-101, 111-133, 135-157, 162-181, 188-205, 256-278, 306-328, 343-365 and 377-395 257310014189 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310014190 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310014191 TM-ABC transporter signature motif; other site 257310014192 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 2.9e-69 257310014193 8 probable transmembrane helices predicted for BB2908 by TMHMM2.0 at aa 15-37, 44-63, 67-89, 101-123, 153-175, 206-228, 243-265 and 282-299 257310014194 Signal peptide predicted for BB2909 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 25 and 26; signal peptide 257310014195 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257310014196 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 257310014197 dimerization interface [polypeptide binding]; other site 257310014198 ligand binding site [chemical binding]; other site 257310014199 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 2.4e-27 257310014200 1 probable transmembrane helix predicted for BB2909 by TMHMM2.0 at aa 7-29 257310014201 Signal peptide predicted for BB2910 by SignalP 2.0 HMM (Signal peptide probabilty 0.617) with cleavage site probability 0.287 between residues 29 and 30; signal peptide 257310014202 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 257310014203 HMMPfam hit to PF02592, DE Uncharacterized ACR, YhhQ family COG1738, score 5.8e-06 257310014204 4 probable transmembrane helices predicted for BB2910 by TMHMM2.0 at aa 13-35, 71-93, 122-144 and 149-171 257310014205 Signal peptide predicted for BB2911 by SignalP 2.0 HMM (Signal peptide probabilty 0.990) with cleavage site probability 0.967 between residues 20 and 21; signal peptide 257310014206 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 257310014207 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 257310014208 HMMPfam hit to PF01089, DE Delta 1-pyrroline-5-carboxylate reductase, score 2.1e-76 257310014209 Signal peptide predicted for BB2912 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 24 and 25; signal peptide 257310014210 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 257310014211 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 257310014212 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 2.5e-46 257310014213 PS01037 Bacterial extracellular substrate-binding proteins, family 1 signature. 257310014214 PS00019 Actinin-type actin-binding domain signature 1. 257310014215 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310014216 dimer interface [polypeptide binding]; other site 257310014217 conserved gate region; other site 257310014218 putative PBP binding loops; other site 257310014219 ABC-ATPase subunit interface; other site 257310014220 6 probable transmembrane helices predicted for BB2913 by TMHMM2.0 at aa 12-34, 74-96, 109-140, 155-177, 205-227 and 265-287 257310014221 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4.4e-17 257310014222 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310014223 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 257310014224 Signal peptide predicted for BB2914 by SignalP 2.0 HMM (Signal peptide probabilty 0.750) with cleavage site probability 0.409 between residues 38 and 39; signal peptide 257310014225 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310014226 dimer interface [polypeptide binding]; other site 257310014227 conserved gate region; other site 257310014228 putative PBP binding loops; other site 257310014229 ABC-ATPase subunit interface; other site 257310014230 6 probable transmembrane helices predicted for BB2914 by TMHMM2.0 at aa 7-29, 84-106, 113-132, 147-169, 190-212 and 247-269 257310014231 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.8e-17 257310014232 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310014233 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 257310014234 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 257310014235 Walker A/P-loop; other site 257310014236 ATP binding site [chemical binding]; other site 257310014237 Q-loop/lid; other site 257310014238 ABC transporter signature motif; other site 257310014239 Walker B; other site 257310014240 D-loop; other site 257310014241 H-loop/switch region; other site 257310014242 TOBE domain; Region: TOBE_2; pfam08402 257310014243 HMMPfam hit to PF00005, DE ABC transporter score 4.5e-66 257310014244 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014245 PS00211 ABC transporters family signature. 257310014246 Signal peptide predicted for BB2916 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 28 and 29; signal peptide 257310014247 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257310014248 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 257310014249 dimerization interface [polypeptide binding]; other site 257310014250 ligand binding site [chemical binding]; other site 257310014251 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 4.9e-28 257310014252 Serine hydrolase; Region: Ser_hydrolase; pfam06821 257310014253 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310014254 locus encoding proteins involved in the biosynthesis and export of capsular polysaccharide 257310014255 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 257310014256 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 257310014257 active site 257310014258 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 257310014259 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 257310014260 Methyltransferase domain; Region: Methyltransf_12; pfam08242 257310014261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310014262 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 257310014263 Enoylreductase; Region: PKS_ER; smart00829 257310014264 NAD(P) binding site [chemical binding]; other site 257310014265 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 257310014266 KR domain; Region: KR; pfam08659 257310014267 putative NADP binding site [chemical binding]; other site 257310014268 active site 257310014269 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 257310014270 HMMPfam hit to PF00109, DE Beta-ketoacyl synthase, N-terminal domain, score 5.7e-107 257310014271 PS00606 Beta-ketoacyl synthases active site. 257310014272 HMMPfam hit to PF02801, DE Beta-ketoacyl synthase, C-terminal domain, score 9.6e-75 257310014273 HMMPfam hit to PF00698, DE Acyl transferase domain, score 3e-79 257310014274 PS00290 Immunoglobulins and major histocompatibility complex proteins signature. 257310014275 HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 1.7e-66 257310014276 HMMPfam hit to PF00550, DE Phosphopantetheine attachment site, score 1.1e-13 257310014277 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 257310014278 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 257310014279 substrate-cofactor binding pocket; other site 257310014280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310014281 catalytic residue [active] 257310014282 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 9.8e-17 257310014283 Signal peptide predicted for BB2920 by SignalP 2.0 HMM (Signal peptide probabilty 0.701) with cleavage site probability 0.627 between residues 22 and 23; signal peptide 257310014284 Sulfatase; Region: Sulfatase; cl17466 257310014285 5 probable transmembrane helices predicted for BB2920 by TMHMM2.0 at aa 5-23, 38-60, 65-87, 113-135 and 155-177 257310014286 Signal peptide predicted for BB2921 by SignalP 2.0 HMM (Signal peptide probabilty 0.970) with cleavage site probability 0.957 between residues 23 and 24; signal peptide 257310014287 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 257310014288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310014289 NAD(P) binding site [chemical binding]; other site 257310014290 active site 257310014291 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 3.4e-23 257310014292 PS00061 Short-chain dehydrogenases/reductases family signature. 257310014293 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 257310014294 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 257310014295 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310014296 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 257310014297 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 257310014298 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 257310014299 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 257310014300 NAD binding site [chemical binding]; other site 257310014301 substrate binding site [chemical binding]; other site 257310014302 homodimer interface [polypeptide binding]; other site 257310014303 active site 257310014304 HMMPfam hit to PF01370, DE NAD dependent epimerase/dehydratase family, score 5.7e-116 257310014305 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 257310014306 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 257310014307 NAD(P) binding site [chemical binding]; other site 257310014308 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 257310014309 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 257310014310 HMMPfam hit to PF03720, DE UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain, score 2.8e-31 257310014311 HMMPfam hit to PF00984, DE UDP-glucose/GDP-mannose dehydrogenase family, central domain, score 2e-43 257310014312 HMMPfam hit to PF03721, DE UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain, score 2.8e-71 257310014313 Signal peptide predicted for BB2926 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.533 between residues 31 and 32; signal peptide 257310014314 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 257310014315 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 257310014316 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02563, DE Polysaccharide biosynthesis/export protein, score 7.6e-06 257310014317 PS00215 Mitochondrial energy transfer proteins signature. 257310014318 1 probable transmembrane helix predicted for BB2926 by TMHMM2.0 at aa 5-27 257310014319 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310014320 Vi polysaccharide biosynthesis protein TviD; Provisional; Region: PRK15180 257310014321 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 257310014322 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 257310014323 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 8.3e-19 257310014324 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 257310014325 2 probable transmembrane helices predicted for BB2929 by TMHMM2.0 at aa 25-47 and 366-385 257310014326 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 257310014327 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 257310014328 Walker A/P-loop; other site 257310014329 ATP binding site [chemical binding]; other site 257310014330 Q-loop/lid; other site 257310014331 ABC transporter signature motif; other site 257310014332 Walker B; other site 257310014333 D-loop; other site 257310014334 H-loop/switch region; other site 257310014335 HMMPfam hit to PF00005, DE ABC transporter score 1.5e-10 257310014336 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014337 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 257310014338 ABC-2 type transporter; Region: ABC2_membrane; cl17235 257310014339 HMMPfam hit to PF01061, DE ABC-2 type transporter score 3.7e-38 257310014340 PS00890 ABC-2 type transport system integral membrane proteins signature. 257310014341 4 probable transmembrane helices predicted for BB2931 by TMHMM2.0 at aa 29-51, 61-83, 104-126 and 141-163 257310014342 Signal peptide predicted for BB2932 by SignalP 2.0 HMM (Signal peptide probabilty 0.691) with cleavage site probability 0.670 between residues 30 and 31; signal peptide 257310014343 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 257310014344 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 257310014345 active site 257310014346 HMMPfam hit to PF00535, DE Glycosyl transferase, score 3.6e-33 257310014347 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310014348 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 257310014349 TPR motif; other site 257310014350 binding surface 257310014351 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 257310014352 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 257310014353 dimerization interface [polypeptide binding]; other site 257310014354 DPS ferroxidase diiron center [ion binding]; other site 257310014355 ion pore; other site 257310014356 HMMPfam hit to PF00210, DE Ferritin-like domain, score 8.9e-29 257310014357 PS00819 Dps protein family signature 2. 257310014358 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 257310014359 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 257310014360 tetrameric interface [polypeptide binding]; other site 257310014361 NAD binding site [chemical binding]; other site 257310014362 catalytic residues [active] 257310014363 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 3.3e-147 257310014364 PS00070 Aldehyde dehydrogenases cysteine active site. 257310014365 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310014366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310014367 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 257310014368 putative effector binding pocket; other site 257310014369 dimerization interface [polypeptide binding]; other site 257310014370 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.5e-14 257310014371 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2e-34 257310014372 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 257310014373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310014374 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 257310014375 dimerization interface [polypeptide binding]; other site 257310014376 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.1e-52 257310014377 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.6e-24 257310014378 PS00044 Bacterial regulatory proteins, lysR family signature. 257310014379 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 257310014380 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 257310014381 generic binding surface II; other site 257310014382 ssDNA binding site; other site 257310014383 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 257310014384 ATP binding site [chemical binding]; other site 257310014385 putative Mg++ binding site [ion binding]; other site 257310014386 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 257310014387 nucleotide binding region [chemical binding]; other site 257310014388 ATP-binding site [chemical binding]; other site 257310014389 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 2.3e-21 257310014390 HMMPfam hit to PF00270, DE DEAD/DEAH box helicase, score 5.1e-21 257310014391 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014392 Signal peptide predicted for BB2940 by SignalP 2.0 HMM (Signal peptide probabilty 0.839) with cleavage site probability 0.637 between residues 23 and 24; signal peptide 257310014393 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310014394 homotrimer interaction site [polypeptide binding]; other site 257310014395 putative active site [active] 257310014396 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 3.4e-49 257310014397 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 257310014398 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310014399 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310014400 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 3.3e-84 257310014401 PS00237 G-protein coupled receptors signature. 257310014402 HMMPfam hit to PF03212, DE Pertactin, score 8.2e-26 257310014403 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 257310014404 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257310014405 active site 257310014406 catalytic tetrad [active] 257310014407 HMMPfam hit to PF00248, DE Aldo/keto reductase family, score 5.9e-86 257310014408 PS00062 Aldo/keto reductase family signature 2. 257310014409 PS00798 Aldo/keto reductase family signature 1. 257310014410 Signal peptide predicted for BB2943 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.772 between residues 16 and 17; signal peptide 257310014411 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 257310014412 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310014413 putative substrate translocation pore; other site 257310014414 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0035 257310014415 12 probable transmembrane helices predicted for BB2943 by TMHMM2.0 at aa 5-27, 42-64, 71-90, 100-122, 131-153, 158-180, 201-223, 238-260, 267-289, 293-315, 328-350 and 354-376 257310014416 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310014417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310014418 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 257310014419 putative effector binding pocket; other site 257310014420 dimerization interface [polypeptide binding]; other site 257310014421 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 7.9e-23 257310014422 PS00044 Bacterial regulatory proteins, lysR family signature. 257310014423 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.9e-42 257310014424 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 257310014425 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 257310014426 FAD binding pocket [chemical binding]; other site 257310014427 FAD binding motif [chemical binding]; other site 257310014428 phosphate binding motif [ion binding]; other site 257310014429 beta-alpha-beta structure motif; other site 257310014430 NAD binding pocket [chemical binding]; other site 257310014431 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 0.0016 257310014432 HMMPfam hit to PF00970, DE Oxidoreductase FAD-binding domain, score 0.00038 257310014433 Signal peptide predicted for BB2946 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.988 between residues 30 and 31; signal peptide 257310014434 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 257310014435 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 257310014436 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 0.00084 257310014437 Signal peptide predicted for BB2947 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.651 between residues 40 and 41; signal peptide 257310014438 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 257310014439 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310014440 dimer interface [polypeptide binding]; other site 257310014441 conserved gate region; other site 257310014442 putative PBP binding loops; other site 257310014443 ABC-ATPase subunit interface; other site 257310014444 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310014445 dimer interface [polypeptide binding]; other site 257310014446 conserved gate region; other site 257310014447 ABC-ATPase subunit interface; other site 257310014448 11 probable transmembrane helices predicted for BB2947 by TMHMM2.0 at aa 21-43, 66-88, 100-122, 151-170, 196-218, 250-269, 293-315, 345-367, 386-408, 418-440 and 529-548 257310014449 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 3.3e-11 257310014450 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310014451 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4e-05 257310014452 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 257310014453 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 257310014454 Walker A/P-loop; other site 257310014455 ATP binding site [chemical binding]; other site 257310014456 Q-loop/lid; other site 257310014457 ABC transporter signature motif; other site 257310014458 Walker B; other site 257310014459 D-loop; other site 257310014460 H-loop/switch region; other site 257310014461 HMMPfam hit to PF00005, DE ABC transporter score 3.9e-59 257310014462 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014463 PS00211 ABC transporters family signature. 257310014464 Pirin-related protein [General function prediction only]; Region: COG1741 257310014465 Pirin; Region: Pirin; pfam02678 257310014466 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 257310014467 HMMPfam hit to PF02678, DE Uncharacterized BCR, YhhW family COG1741, score 6.7e-06 257310014468 Pirin-related protein [General function prediction only]; Region: COG1741 257310014469 Pirin; Region: Pirin; pfam02678 257310014470 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02678, DE Uncharacterized BCR, YhhW family COG1741, score 1.3e-111 257310014471 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310014472 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 257310014473 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310014474 dimerization interface [polypeptide binding]; other site 257310014475 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 9.7e-19 257310014476 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.6e-21 257310014477 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 257310014478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310014479 active site 257310014480 phosphorylation site [posttranslational modification] 257310014481 intermolecular recognition site; other site 257310014482 dimerization interface [polypeptide binding]; other site 257310014483 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310014484 Walker A motif; other site 257310014485 ATP binding site [chemical binding]; other site 257310014486 Walker B motif; other site 257310014487 arginine finger; other site 257310014488 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 257310014489 HMMPfam hit to PF02954, DE Bacterial regulatory protein, Fis family, score 3.8e-12 257310014490 PS00688 Sigma-54 interaction domain C-terminal part signature. 257310014491 HMMPfam hit to PF00158, DE Sigma-54 interaction domain, score 2.4e-133 257310014492 PS00676 Sigma-54 interaction domain ATP-binding region B signature. 257310014493 PS00675 Sigma-54 interaction domain ATP-binding region A signature. 257310014494 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 2.4e-34 257310014495 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 257310014496 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 257310014497 putative active site [active] 257310014498 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310014499 dimer interface [polypeptide binding]; other site 257310014500 phosphorylation site [posttranslational modification] 257310014501 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310014502 ATP binding site [chemical binding]; other site 257310014503 Mg2+ binding site [ion binding]; other site 257310014504 G-X-G motif; other site 257310014505 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 1.4e-26 257310014506 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 1.2e-13 257310014507 glutamine synthetase; Provisional; Region: glnA; PRK09469 257310014508 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 257310014509 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 257310014510 PS00182 Glutamine synthetase class-I adenylation site. 257310014511 HMMPfam hit to PF00120, DE Glutamine synthetase, catalytic domain, score 3.6e-166 257310014512 PS00181 Glutamine synthetase ATP-binding region signature. 257310014513 HMMPfam hit to PF03951, DE Glutamine synthetase, beta-Grasp domain, score 1.3e-39 257310014514 PS00180 Glutamine synthetase signature 1. 257310014515 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 257310014516 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 257310014517 FeS/SAM binding site; other site 257310014518 HemN C-terminal domain; Region: HemN_C; pfam06969 257310014519 HMMPfam hit to PF02473, , score 3.9e-11 257310014520 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 257310014521 active site 257310014522 dimerization interface [polypeptide binding]; other site 257310014523 HMMPfam hit to PF01725, DE Ham1 family, score 6.9e-66 257310014524 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 257310014525 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 257310014526 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310014527 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310014528 metal binding site [ion binding]; metal-binding site 257310014529 active site 257310014530 HMMPfam hit to PF00563, DE EAL domain, score 1.8e-30 257310014531 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310014532 HMMPfam hit to PF00990, DE GGDEF domain, score 0.00035 257310014533 Signal peptide predicted for BB2958 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.583 between residues 44 and 45; signal peptide 257310014534 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310014535 dimerization interface [polypeptide binding]; other site 257310014536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 257310014537 dimer interface [polypeptide binding]; other site 257310014538 putative CheW interface [polypeptide binding]; other site 257310014539 HMMPfam hit to PF00015, DE Methyl-accepting chemotaxis protein (MCP) signaling domain, score 1.2e-68 257310014540 HMMPfam hit to PF00672, DE HAMP domain, score 6.2e-08 257310014541 2 probable transmembrane helices predicted for BB2958 by TMHMM2.0 at aa 27-49 and 208-230 257310014542 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310014543 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310014544 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 257310014545 putative dimerization interface [polypeptide binding]; other site 257310014546 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.3e-38 257310014547 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.7e-15 257310014548 PS00044 Bacterial regulatory proteins, lysR family signature. 257310014549 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 257310014550 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 7.8e-133 257310014551 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310014552 ribonuclease PH; Reviewed; Region: rph; PRK00173 257310014553 Ribonuclease PH; Region: RNase_PH_bact; cd11362 257310014554 hexamer interface [polypeptide binding]; other site 257310014555 active site 257310014556 HMMPfam hit to PF03725, DE 3' exoribonuclease family, domain 2, score 1.5e-16 257310014557 HMMPfam hit to PF01138, DE 3' exoribonuclease family, domain 1, score 1.6e-46 257310014558 hypothetical protein; Provisional; Region: PRK11820 257310014559 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 257310014560 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 257310014561 HMMPfam hit to PF03755, DE YicC-like family, N-terminal region, score 5.4e-38 257310014562 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310014563 non-specific DNA binding site [nucleotide binding]; other site 257310014564 salt bridge; other site 257310014565 sequence-specific DNA binding site [nucleotide binding]; other site 257310014566 HMMPfam hit to PF01381, DE Helix-turn-helix, score 2.3e-06 257310014567 AMP nucleosidase; Provisional; Region: PRK08292 257310014568 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 257310014569 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 257310014570 HMMPfam hit to PF01048, DE Phosphorylase family, score 4.3e-38 257310014571 Signal peptide predicted for BB2967 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.346 between residues 25 and 26; signal peptide 257310014572 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 257310014573 NlpC/P60 family; Region: NLPC_P60; pfam00877 257310014574 HMMPfam hit to PF00877, DE NLP/P60 family, score 2e-51 257310014575 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 257310014576 classical (c) SDRs; Region: SDR_c; cd05233 257310014577 NAD(P) binding site [chemical binding]; other site 257310014578 active site 257310014579 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.2e-55 257310014580 PS00061 Short-chain dehydrogenases/reductases family signature. 257310014581 Signal peptide predicted for BB2969 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 29 and 30; signal peptide 257310014582 Cytochrome c; Region: Cytochrom_C; cl11414 257310014583 Cytochrome c; Region: Cytochrom_C; cl11414 257310014584 HMMPfam hit to PF00034, DE Cytochrome c, score 1.4e-05 257310014585 PS00190 Cytochrome c family heme-binding site signature. 257310014586 HMMPfam hit to PF00034, DE Cytochrome c, score 0.0046 257310014587 PS00190 Cytochrome c family heme-binding site signature. 257310014588 Signal peptide predicted for BB2970 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 26 and 27; signal peptide 257310014589 Cytochrome c [Energy production and conversion]; Region: COG3258 257310014590 Cytochrome c; Region: Cytochrom_C; pfam00034 257310014591 PS00190 Cytochrome c family heme-binding site signature. 257310014592 HMMPfam hit to PF00034, DE Cytochrome c, score 0.79 257310014593 PS00190 Cytochrome c family heme-binding site signature. 257310014594 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 257310014595 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 257310014596 catalytic site [active] 257310014597 G-X2-G-X-G-K; other site 257310014598 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014599 PS00856 Guanylate kinase signature. 257310014600 HMMPfam hit to PF00625, DE Guanylate kinase, score 1e-30 257310014601 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 257310014602 HMMPfam hit to PF01192, DE RNA polymerase Rpb6, score 1.4e-07 257310014603 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 257310014604 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 257310014605 Zn2+ binding site [ion binding]; other site 257310014606 Mg2+ binding site [ion binding]; other site 257310014607 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 257310014608 synthetase active site [active] 257310014609 NTP binding site [chemical binding]; other site 257310014610 metal binding site [ion binding]; metal-binding site 257310014611 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 257310014612 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 257310014613 HMMPfam hit to PF01966, DE HD domain, score 2.5e-10 257310014614 HMMPfam hit to PF02824, DE TGS domain, score 1.1e-30 257310014615 HMMPfam hit to PF01842, DE ACT domain, score 2.9e-06 257310014616 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 257310014617 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310014618 Walker A/P-loop; other site 257310014619 ATP binding site [chemical binding]; other site 257310014620 Q-loop/lid; other site 257310014621 ABC transporter signature motif; other site 257310014622 Walker B; other site 257310014623 D-loop; other site 257310014624 H-loop/switch region; other site 257310014625 HMMPfam hit to PF00005, DE ABC transporter score 9.6e-66 257310014626 PS00211 ABC transporters family signature. 257310014627 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014628 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 257310014629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310014630 dimer interface [polypeptide binding]; other site 257310014631 conserved gate region; other site 257310014632 putative PBP binding loops; other site 257310014633 ABC-ATPase subunit interface; other site 257310014634 5 probable transmembrane helices predicted for BB2975 by TMHMM2.0 at aa 25-47, 60-82, 92-114, 127-144 and 190-212 257310014635 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 3e-10 257310014636 Signal peptide predicted for BB2976 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.893 between residues 26 and 27; signal peptide 257310014637 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 257310014638 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310014639 substrate binding pocket [chemical binding]; other site 257310014640 membrane-bound complex binding site; other site 257310014641 hinge residues; other site 257310014642 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 5.7e-78 257310014643 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014644 PS01039 Bacterial extracellular substrate-binding proteins, family 3 signature. 257310014645 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 257310014646 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 257310014647 5-oxoprolinase; Region: PLN02666 257310014648 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 257310014649 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 257310014650 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 257310014651 HMMPfam hit to PF02538, DE Hydantoinase B/oxoprolinase, score 1.8e-276 257310014652 PS00227 Tubulin subunits alpha, beta, and gamma signature. 257310014653 HMMPfam hit to PF01968, DE Hydantoinase/oxoprolinase, score 3.5e-265 257310014654 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310014655 MarR family; Region: MarR_2; cl17246 257310014656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310014657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310014658 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310014659 dimerization interface [polypeptide binding]; other site 257310014660 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.3e-18 257310014661 PS00044 Bacterial regulatory proteins, lysR family signature. 257310014662 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.1e-37 257310014663 1 probable transmembrane helix predicted for BB2981 by TMHMM2.0 at aa 116-138 257310014664 Signal peptide predicted for BB2982 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.991 between residues 20 and 21; signal peptide 257310014665 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310014666 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 1.3e-15 257310014667 Signal peptide predicted for BB2983 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.581 between residues 28 and 29; signal peptide 257310014668 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310014669 PS00041 Bacterial regulatory proteins, araC family signature. 257310014670 4 probable transmembrane helices predicted for BB2983 by TMHMM2.0 at aa 7-29, 44-63, 84-106 and 126-145 257310014671 Signal peptide predicted for BB2984 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.485 between residues 30 and 31; signal peptide 257310014672 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310014673 10 probable transmembrane helices predicted for BB2984 by TMHMM2.0 at aa 7-40, 55-77, 98-120, 140-162, 175-197, 221-243, 286-308, 323-345, 366-388 and 403-425 257310014674 PS00041 Bacterial regulatory proteins, araC family signature. 257310014675 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014676 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310014677 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310014678 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 2.8e-27 257310014679 Signal peptide predicted for BB2986 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.954 between residues 29 and 30; signal peptide 257310014680 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310014681 4 probable transmembrane helices predicted for BB2986 by TMHMM2.0 at aa 9-31, 46-63, 86-104 and 124-146 257310014682 Signal peptide predicted for BB2987 by SignalP 2.0 HMM (Signal peptide probabilty 0.983) with cleavage site probability 0.938 between residues 29 and 30; signal peptide 257310014683 DctM-like transporters; Region: DctM; pfam06808 257310014684 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 257310014685 12 probable transmembrane helices predicted for BB2987 by TMHMM2.0 at aa 5-27, 47-69, 102-124, 144-166, 175-197, 224-243, 250-272, 282-304, 311-333, 337-354, 361-383 and 398-420 257310014686 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310014687 Signal peptide predicted for BB2988 by SignalP 2.0 HMM (Signal peptide probabilty 0.963) with cleavage site probability 0.596 between residues 32 and 33; signal peptide 257310014688 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 257310014689 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 257310014690 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 257310014691 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03865, DE Hemolysin activator HlyB, score 6.4e-06 257310014692 PS00215 Mitochondrial energy transfer proteins signature. 257310014693 Signal peptide predicted for BB2989 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 26 and 27; signal peptide 257310014694 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 257310014695 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00419, DE Fimbrial protein, score 0.0004 257310014696 1 probable transmembrane helix predicted for BB2989 by TMHMM2.0 at aa 5-27 257310014697 Signal peptide predicted for BB2990 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.459 between residues 18 and 19; signal peptide 257310014698 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 257310014699 PapC N-terminal domain; Region: PapC_N; pfam13954 257310014700 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 257310014701 HMMPfam hit to PF00577, DE Fimbrial Usher protein, score 0 257310014702 PS01151 Fimbrial biogenesis outer membrane usher protein signature. 257310014703 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 257310014704 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 257310014705 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 257310014706 HMMPfam hit to PF02753, DE Gram-negative pili assembly chaperone, C-terminal domain, score 1.7e-31 257310014707 HMMPfam hit to PF00345, DE Gram-negative pili assembly chaperone, N-terminal domain, score 2.1e-72 257310014708 PS00635 Gram-negative pili assembly chaperone signature. 257310014709 1 probable transmembrane helix predicted for BB2991 by TMHMM2.0 at aa 38-60 257310014710 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 257310014711 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00419, DE Fimbrial protein, score 2.4e-08 257310014712 haemagglutination activity domain; Region: Haemagg_act; pfam05860 257310014713 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 257310014714 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 257310014715 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014716 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 257310014717 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310014718 active site 257310014719 phosphorylation site [posttranslational modification] 257310014720 intermolecular recognition site; other site 257310014721 dimerization interface [polypeptide binding]; other site 257310014722 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310014723 DNA binding residues [nucleotide binding] 257310014724 dimerization interface [polypeptide binding]; other site 257310014725 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1e-28 257310014726 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 4.9e-27 257310014727 PS00622 Bacterial regulatory proteins, luxR family signature. 257310014728 Signal peptide predicted for BB2995 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.816 between residues 32 and 33; signal peptide 257310014729 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 257310014730 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310014731 substrate binding pocket [chemical binding]; other site 257310014732 membrane-bound complex binding site; other site 257310014733 hinge residues; other site 257310014734 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310014735 substrate binding pocket [chemical binding]; other site 257310014736 membrane-bound complex binding site; other site 257310014737 hinge residues; other site 257310014738 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 257310014739 putative active site [active] 257310014740 heme pocket [chemical binding]; other site 257310014741 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310014742 dimer interface [polypeptide binding]; other site 257310014743 phosphorylation site [posttranslational modification] 257310014744 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310014745 ATP binding site [chemical binding]; other site 257310014746 Mg2+ binding site [ion binding]; other site 257310014747 G-X-G motif; other site 257310014748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310014749 active site 257310014750 phosphorylation site [posttranslational modification] 257310014751 intermolecular recognition site; other site 257310014752 dimerization interface [polypeptide binding]; other site 257310014753 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 257310014754 putative binding surface; other site 257310014755 active site 257310014756 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 1.8e-18 257310014757 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 1.1e-43 257310014758 1 probable transmembrane helix predicted for BB2995 by TMHMM2.0 at aa 541-563 257310014759 HMMPfam hit to PF00989, DE PAS domain, score 8.4e-12 257310014760 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014761 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 7.6e-23 257310014762 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 8e-40 257310014763 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 3.4e-40 257310014764 EAL domain; Region: EAL; pfam00563 257310014765 HMMPfam hit to PF00563, DE EAL domain, score 3.8e-08 257310014766 Signal peptide predicted for BB2997 by SignalP 2.0 HMM (Signal peptide probabilty 0.917) with cleavage site probability 0.810 between residues 25 and 26; signal peptide 257310014767 hypothetical protein; Provisional; Region: PRK05463 257310014768 amidase; Provisional; Region: PRK07056 257310014769 Amidase; Region: Amidase; cl11426 257310014770 HMMPfam hit to PF01425, DE Amidase, score 9.2e-89 257310014771 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 257310014772 Signal peptide predicted for BB3000 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.869 between residues 21 and 22; signal peptide 257310014773 DctM-like transporters; Region: DctM; pfam06808 257310014774 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310014775 11 probable transmembrane helices predicted for BB3000 by TMHMM2.0 at aa 7-29, 53-75, 135-157, 172-194, 215-237, 242-260, 273-295, 305-327, 334-353, 358-380 and 393-415 257310014776 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310014777 HMMPfam hit to PF00597, DE DedA family, score 0.0087 257310014778 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310014779 4 probable transmembrane helices predicted for BB3001 by TMHMM2.0 at aa 23-45, 60-77, 97-119 and 141-163 257310014780 Signal peptide predicted for BB3002 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 22 and 23; signal peptide 257310014781 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310014782 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 7.4e-14 257310014783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310014784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310014785 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310014786 dimerization interface [polypeptide binding]; other site 257310014787 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.8e-32 257310014788 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2e-21 257310014789 PS00044 Bacterial regulatory proteins, lysR family signature. 257310014790 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310014791 EamA-like transporter family; Region: EamA; pfam00892 257310014792 10 probable transmembrane helices predicted for BB3004 by TMHMM2.0 at aa 21-40, 50-72, 93-115, 119-136, 143-160, 165-187, 200-222, 232-254, 261-283 and 288-307 257310014793 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 6.7e-06 257310014794 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310014795 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 1.6e-08 257310014796 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 257310014797 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 257310014798 Walker A/P-loop; other site 257310014799 ATP binding site [chemical binding]; other site 257310014800 Q-loop/lid; other site 257310014801 ABC transporter signature motif; other site 257310014802 Walker B; other site 257310014803 D-loop; other site 257310014804 H-loop/switch region; other site 257310014805 HMMPfam hit to PF00005, DE ABC transporter score 3.2e-60 257310014806 PS00211 ABC transporters family signature. 257310014807 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014808 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 257310014809 active site 257310014810 catalytic triad [active] 257310014811 oxyanion hole [active] 257310014812 switch loop; other site 257310014813 HMMPfam hit to PF00657, DE Lipase/Acylhydrolase with GDSL-like motif, score 2.4e-07 257310014814 SurA N-terminal domain; Region: SurA_N_3; cl07813 257310014815 periplasmic folding chaperone; Provisional; Region: PRK10788 257310014816 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 257310014817 HMMPfam hit to PF00639, DE PPIC-type PPIASE domain, score 1.7e-26 257310014818 PS01096 PpiC-type peptidyl-prolyl cis-trans isomerase signature. 257310014819 1 probable transmembrane helix predicted for BB3007 by TMHMM2.0 at aa 34-56 257310014820 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 257310014821 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 257310014822 putative active site [active] 257310014823 catalytic site [active] 257310014824 putative metal binding site [ion binding]; other site 257310014825 HMMPfam hit to PF03009, DE Glycerophosphoryl diester phosphodiesterase family, score 1e-53 257310014826 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 257310014827 Signal peptide predicted for BB3010 by SignalP 2.0 HMM (Signal peptide probabilty 0.832) with cleavage site probability 0.661 between residues 26 and 27; signal peptide 257310014828 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 257310014829 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257310014830 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310014831 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 257310014832 HMMPfam hit to PF02852, DE Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain, score 6.3e-09 257310014833 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 8e-37 257310014834 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 257310014835 catalytic triad [active] 257310014836 dimer interface [polypeptide binding]; other site 257310014837 Glutaredoxin-family domain; Region: GlrX-dom; TIGR02190 257310014838 HMMPfam hit to PF00462, DE Glutaredoxin, score 1.7e-11 257310014839 PS00195 Glutaredoxin active site. 257310014840 HMMPfam hit to PF00578, DE AhpC/TSA family, score 6.4e-38 257310014841 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 257310014842 metal-binding site [ion binding] 257310014843 HMMPfam hit to PF00403, DE Heavy-metal-associated domain, score 5.9e-07 257310014844 PS01047 Heavy-metal-associated domain. 257310014845 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 257310014846 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 257310014847 DNA binding residues [nucleotide binding] 257310014848 dimer interface [polypeptide binding]; other site 257310014849 copper binding site [ion binding]; other site 257310014850 HMMPfam hit to PF00376, DE Bacterial regulatory proteins, merR family, score 9.4e-13 257310014851 PS00552 Bacterial regulatory proteins, merR family signature. 257310014852 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 257310014853 TRAM domain; Region: TRAM; cl01282 257310014854 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310014855 S-adenosylmethionine binding site [chemical binding]; other site 257310014856 HMMPfam hit to PF01938, DE TRAM domain, score 0.21 257310014857 Signal peptide predicted for BB3015 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.975 between residues 21 and 22; signal peptide 257310014858 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 257310014859 Signal peptide predicted for BB3016 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.973 between residues 54 and 55; signal peptide 257310014860 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 257310014861 active site 257310014862 catalytic site [active] 257310014863 substrate binding site [chemical binding]; other site 257310014864 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 257310014865 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 257310014866 Peptidase family M23; Region: Peptidase_M23; pfam01551 257310014867 HMMPfam hit to PF01551, DE Peptidase family M23/M37, score 4.2e-33 257310014868 HMMPfam hit to PF01476, DE LysM domain, score 2.2e-18 257310014869 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 257310014870 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310014871 S-adenosylmethionine binding site [chemical binding]; other site 257310014872 HMMPfam hit to PF01135, DE Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT), score 5.7e-68 257310014873 PS01279 Protein-L-isoaspartate(D-aspartate) O-methyltransferase signature. 257310014874 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 257310014875 HMMPfam hit to PF01975, DE Survival protein SurE, score 3.2e-82 257310014876 Signal peptide predicted for BB3021 by SignalP 2.0 HMM (Signal peptide probabilty 0.978) with cleavage site probability 0.879 between residues 22 and 23; signal peptide 257310014877 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 257310014878 6 probable transmembrane helices predicted for BB3021 by TMHMM2.0 at aa 12-34, 64-83, 90-112, 122-144, 151-170 and 174-196 257310014879 HMMPfam hit to PF02660, DE Domain of unknown function DUF, score 8.4e-66 257310014880 UGMP family protein; Validated; Region: PRK09604 257310014881 HMMPfam hit to PF00814, DE Glycoprotease family, score 1.1e-154 257310014882 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 257310014883 11 probable transmembrane helices predicted for BB3023 by TMHMM2.0 at aa 12-34, 49-71, 78-97, 102-124, 133-155, 170-187, 194-216, 231-253, 320-342, 377-399 and 411-428 257310014884 HMMPfam hit to PF00860, DE Permease family, score 3.2e-35 257310014885 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 257310014886 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 257310014887 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 257310014888 HMMPfam hit to PF00296, DE Luciferase-like monooxygenase, score 1.9e-31 257310014889 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 257310014890 catalytic residues [active] 257310014891 HMMPfam hit to PF00085, DE Thioredoxin, score 1.1e-27 257310014892 PS00194 Thioredoxin family active site. 257310014893 Uncharacterized conserved protein [Function unknown]; Region: COG1739 257310014894 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 257310014895 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 257310014896 HMMPfam hit to PF01205, DE Uncharacterized protein family UPF0029, score 1e-49 257310014897 PS00910 Uncharacterized protein family UPF0029 signature. 257310014898 Signal peptide predicted for BB3027 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.393 between residues 38 and 39; signal peptide 257310014899 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 257310014900 Signal peptide predicted for BB3028 by SignalP 2.0 HMM (Signal peptide probabilty 0.960) with cleavage site probability 0.551 between residues 31 and 32; signal peptide 257310014901 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310014902 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310014903 dimer interface [polypeptide binding]; other site 257310014904 conserved gate region; other site 257310014905 putative PBP binding loops; other site 257310014906 ABC-ATPase subunit interface; other site 257310014907 6 probable transmembrane helices predicted for BB3028 by TMHMM2.0 at aa 13-35, 71-93, 100-122, 127-146, 167-189 and 222-244 257310014908 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.3e-10 257310014909 Signal peptide predicted for BB3029 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 23 and 24; signal peptide 257310014910 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 257310014911 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 257310014912 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310014913 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310014914 Walker A/P-loop; other site 257310014915 ATP binding site [chemical binding]; other site 257310014916 Q-loop/lid; other site 257310014917 ABC transporter signature motif; other site 257310014918 Walker B; other site 257310014919 D-loop; other site 257310014920 H-loop/switch region; other site 257310014921 HMMPfam hit to PF00005, DE ABC transporter score 2.4e-52 257310014922 PS00211 ABC transporters family signature. 257310014923 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014924 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 257310014925 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310014926 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310014927 ABC transporter; Region: ABC_tran_2; pfam12848 257310014928 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310014929 HMMPfam hit to PF00005, DE ABC transporter score 1.4e-35 257310014930 PS00211 ABC transporters family signature. 257310014931 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014932 HMMPfam hit to PF00005, DE ABC transporter score 7.7e-37 257310014933 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014934 Signal peptide predicted for BB3032 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.769 between residues 32 and 33; signal peptide 257310014935 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 257310014936 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310014937 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 1.6e-19 257310014938 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 257310014939 4 probable transmembrane helices predicted for BB3033 by TMHMM2.0 at aa 13-32, 52-71, 92-114 and 138-160 257310014940 Signal peptide predicted for BB3034 by SignalP 2.0 HMM (Signal peptide probabilty 0.848) with cleavage site probability 0.477 between residues 24 and 25; signal peptide 257310014941 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310014942 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310014943 14 probable transmembrane helices predicted for BB3034 by TMHMM2.0 at aa 7-24, 39-70, 91-113, 133-166, 179-201, 211-233, 291-313, 388-410, 417-439, 444-461, 482-501, 511-533, 540-562 and 606-628 257310014944 enoyl-CoA hydratase; Provisional; Region: PRK05995 257310014945 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310014946 substrate binding site [chemical binding]; other site 257310014947 oxyanion hole (OAH) forming residues; other site 257310014948 trimer interface [polypeptide binding]; other site 257310014949 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 8.3e-46 257310014950 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 257310014951 dimer interface [polypeptide binding]; other site 257310014952 catalytic triad [active] 257310014953 HMMPfam hit to PF02016, DE Uncharacterized protein family UPF0094, score 4.9e-59 257310014954 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 257310014955 nucleoside/Zn binding site; other site 257310014956 dimer interface [polypeptide binding]; other site 257310014957 catalytic motif [active] 257310014958 HMMPfam hit to PF00383, DE Cytidine and deoxycytidylate deaminase zinc-binding region, score 1.1e-35 257310014959 PS00903 Cytidine and deoxycytidylate deaminases zinc-binding region signature. 257310014960 Signal peptide predicted for BB3039 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 38 and 39; signal peptide 257310014961 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 257310014962 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03334, DE Na+/H+ antiporter subunit, score 9.5e-11 257310014963 3 probable transmembrane helices predicted for BB3040 by TMHMM2.0 at aa 10-32, 45-67 and 77-99 257310014964 Signal peptide predicted for BB3041 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.746 between residues 22 and 23; signal peptide 257310014965 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 257310014966 3 probable transmembrane helices predicted for BB3041 by TMHMM2.0 at aa 4-26, 38-60 and 65-87 257310014967 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310014968 Signal peptide predicted for BB3042 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.389 between residues 25 and 26; signal peptide 257310014969 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 257310014970 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01899, DE Protein of unknown function DUF68, score 0.00015 257310014971 2 probable transmembrane helices predicted for BB3042 by TMHMM2.0 at aa 5-22 and 26-43 257310014972 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 257310014973 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257310014974 14 probable transmembrane helices predicted for BB3043 by TMHMM2.0 at aa 4-26, 39-61, 87-109, 114-136, 141-163, 176-198, 218-240, 245-267, 282-304, 311-333, 337-359, 393-415, 447-469 and 490-512 257310014975 HMMPfam hit to PF00361, DE NADH-Ubiquinone/plastoquinone (complex I), various chains, score 2.1e-15 257310014976 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 257310014977 HMMPfam hit to PF01898, DE Protein of unknown function DUF67, score 1e-42 257310014978 3 probable transmembrane helices predicted for BB3044 by TMHMM2.0 at aa 4-21, 28-50 and 75-97 257310014979 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 257310014980 Signal peptide predicted for BB3045 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.409 between residues 24 and 25; signal peptide 257310014981 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257310014982 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 257310014983 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 257310014984 22 probable transmembrane helices predicted for BB3045 by TMHMM2.0 at aa 2-24, 34-56, 77-99, 114-136, 163-185, 208-230, 243-265, 269-291, 304-326, 367-389, 459-481, 501-523, 574-596, 606-623, 630-652, 656-678, 699-721, 759-776, 825-844, 854-876, 888-910 and 930-952 257310014985 HMMPfam hit to PF00361, DE NADH-Ubiquinone/plastoquinone (complex I), various chains, score 7.8e-70 257310014986 Signal peptide predicted for BB3046 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.910 between residues 27 and 28; signal peptide 257310014987 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310014988 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310014989 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1e-113 257310014990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310014991 AAA domain; Region: AAA_23; pfam13476 257310014992 Walker A/P-loop; other site 257310014993 ATP binding site [chemical binding]; other site 257310014994 PS00017 ATP/GTP-binding site motif A (P-loop). 257310014995 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 257310014996 active site 257310014997 metal binding site [ion binding]; metal-binding site 257310014998 DNA binding site [nucleotide binding] 257310014999 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 257310015000 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 2.1e-13 257310015001 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 257310015002 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310015003 hydroxyglutarate oxidase; Provisional; Region: PRK11728 257310015004 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 0.0012 257310015005 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 257310015006 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310015007 putative DNA binding site [nucleotide binding]; other site 257310015008 putative Zn2+ binding site [ion binding]; other site 257310015009 AsnC family; Region: AsnC_trans_reg; pfam01037 257310015010 PS00228 Tubulin-beta mRNA autoregulation signal. 257310015011 HMMPfam hit to PF01037, DE AsnC family, score 8.3e-44 257310015012 Protein of unknown function (DUF502); Region: DUF502; pfam04367 257310015013 2 probable transmembrane helices predicted for BB3051 by TMHMM2.0 at aa 24-46 and 61-83 257310015014 Signal peptide predicted for BB3052 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.700 between residues 19 and 20; signal peptide 257310015015 transglutaminase; Provisional; Region: tgl; PRK03187 257310015016 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310015017 Signal peptide predicted for BB3053 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 22 and 23; signal peptide 257310015018 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 257310015019 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 0.002 257310015020 PS00213 Lipocalin signature. 257310015021 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 257310015022 3 probable transmembrane helices predicted for BB3054 by TMHMM2.0 at aa 6-28, 51-68 and 83-100 257310015023 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 257310015024 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310015025 dimer interface [polypeptide binding]; other site 257310015026 conserved gate region; other site 257310015027 putative PBP binding loops; other site 257310015028 ABC-ATPase subunit interface; other site 257310015029 6 probable transmembrane helices predicted for BB3055 by TMHMM2.0 at aa 7-29, 70-92, 104-126, 136-158, 179-201 and 235-257 257310015030 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.012 257310015031 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310015032 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 257310015033 Signal peptide predicted for BB3056 by SignalP 2.0 HMM (Signal peptide probabilty 0.901) with cleavage site probability 0.779 between residues 22 and 23; signal peptide 257310015034 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310015035 putative PBP binding loops; other site 257310015036 dimer interface [polypeptide binding]; other site 257310015037 ABC-ATPase subunit interface; other site 257310015038 6 probable transmembrane helices predicted for BB3056 by TMHMM2.0 at aa 9-31, 66-88, 100-122, 150-172, 207-229 and 255-277 257310015039 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 3.1e-10 257310015040 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310015041 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 257310015042 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 257310015043 Walker A/P-loop; other site 257310015044 ATP binding site [chemical binding]; other site 257310015045 Q-loop/lid; other site 257310015046 ABC transporter signature motif; other site 257310015047 Walker B; other site 257310015048 D-loop; other site 257310015049 H-loop/switch region; other site 257310015050 HMMPfam hit to PF00005, DE ABC transporter score 2.8e-37 257310015051 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015052 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 257310015053 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 257310015054 Walker A/P-loop; other site 257310015055 ATP binding site [chemical binding]; other site 257310015056 Q-loop/lid; other site 257310015057 ABC transporter signature motif; other site 257310015058 Walker B; other site 257310015059 D-loop; other site 257310015060 H-loop/switch region; other site 257310015061 TOBE domain; Region: TOBE_2; pfam08402 257310015062 HMMPfam hit to PF00005, DE ABC transporter score 5.7e-50 257310015063 PS00211 ABC transporters family signature. 257310015064 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015065 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 257310015066 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 257310015067 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 257310015068 HMMPfam hit to PF00455, DE Bacterial regulatory proteins, deoR family, score 7.2e-80 257310015069 PS00894 Bacterial regulatory proteins, deoR family signature. 257310015070 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 257310015071 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 3.2e-88 257310015072 PS00038 Myc-type, 'helix-loop-helix' dimerization domain signature. 257310015073 PS00978 FAD-dependent glycerol-3-phosphate dehydrogenase signature 2. 257310015074 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310015075 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310015076 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310015077 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 2.3e-41 257310015078 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 257310015079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310015080 NAD(P) binding site [chemical binding]; other site 257310015081 active site 257310015082 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 5.6e-12 257310015083 Signal peptide predicted for BB3063 by SignalP 2.0 HMM (Signal peptide probabilty 0.955) with cleavage site probability 0.947 between residues 44 and 45; signal peptide 257310015084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310015085 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.1e-48 257310015086 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 257310015087 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 257310015088 L-aspartate oxidase; Provisional; Region: PRK06175 257310015089 Predicted oxidoreductase [General function prediction only]; Region: COG3573 257310015090 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 257310015091 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 257310015092 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 257310015093 potential catalytic triad [active] 257310015094 conserved cys residue [active] 257310015095 HMMPfam hit to PF01965, DE DJ-1/PfpI family, score 1.7e-24 257310015096 Signal peptide predicted for BB3067 by SignalP 2.0 HMM (Signal peptide probabilty 0.974) with cleavage site probability 0.478 between residues 36 and 37; signal peptide 257310015097 NRDE protein; Region: NRDE; cl01315 257310015098 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310015099 Signal peptide predicted for BB3068 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.910 between residues 27 and 28; signal peptide 257310015100 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 257310015101 Signal peptide predicted for BB3069 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.827 between residues 24 and 25; signal peptide 257310015102 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310015103 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3e-117 257310015104 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 257310015105 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 257310015106 inhibitor site; inhibition site 257310015107 active site 257310015108 dimer interface [polypeptide binding]; other site 257310015109 catalytic residue [active] 257310015110 HMMPfam hit to PF00701, DE Dihydrodipicolinate synthetase family, score 4.5e-11 257310015111 PS00678 Trp-Asp (WD) repeats signature. 257310015112 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310015113 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310015114 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310015115 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 1.5e-18 257310015116 Signal peptide predicted for BB3072 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.944 between residues 28 and 29; signal peptide 257310015117 MAPEG family; Region: MAPEG; cl09190 257310015118 3 probable transmembrane helices predicted for BB3072 by TMHMM2.0 at aa 7-29, 84-106 and 113-130 257310015119 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 257310015120 4 probable transmembrane helices predicted for BB3073 by TMHMM2.0 at aa 13-30, 40-62, 69-88 and 192-209 257310015121 hypothetical protein; Provisional; Region: PRK09256 257310015122 HMMPfam hit to PF00472, DE Peptidyl-tRNA hydrolase domain, score 1.8e-13 257310015123 PS00745 Prokaryotic-type class I peptide chain release factors signature. 257310015124 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 257310015125 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 257310015126 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 257310015127 active site 257310015128 HMMPfam hit to PF01242, DE 6-pyruvoyl tetrahydropterin synthase, score 0.00011 257310015129 Signal peptide predicted for BB3077 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.978 between residues 25 and 26; signal peptide 257310015130 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310015131 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310015132 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 8.7e-60 257310015133 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 257310015134 intersubunit interface [polypeptide binding]; other site 257310015135 active site 257310015136 Zn2+ binding site [ion binding]; other site 257310015137 HMMPfam hit to PF00596, DE Class II Aldolase and Adducin N-terminal domain, score 6.4e-45 257310015138 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310015139 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310015140 non-specific DNA binding site [nucleotide binding]; other site 257310015141 salt bridge; other site 257310015142 sequence-specific DNA binding site [nucleotide binding]; other site 257310015143 Cupin domain; Region: Cupin_2; pfam07883 257310015144 HMMPfam hit to PF01381, DE Helix-turn-helix, score 6e-07 257310015145 Signal peptide predicted for BB3080 by SignalP 2.0 HMM (Signal peptide probabilty 0.926) with cleavage site probability 0.898 between residues 26 and 27; signal peptide 257310015146 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 257310015147 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 257310015148 HMMPfam hit to PF01047, DE MarR family, score 2e-13 257310015149 PS01117 Bacterial regulatory proteins, marR family signature. 257310015150 Fusaric acid resistance protein family; Region: FUSC; pfam04632 257310015151 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 257310015152 9 probable transmembrane helices predicted for BB3081 by TMHMM2.0 at aa 15-37, 57-74, 79-101, 108-125, 135-157, 359-381, 409-431, 438-457 and 492-514 257310015153 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 257310015154 2 probable transmembrane helices predicted for BB3082 by TMHMM2.0 at aa 10-29 and 41-63 257310015155 Signal peptide predicted for BB3083 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.411 between residues 28 and 29; signal peptide 257310015156 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 257310015157 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257310015158 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310015159 1 probable transmembrane helix predicted for BB3083 by TMHMM2.0 at aa 12-34 257310015160 HMMPfam hit to PF00529, DE hemolysin D, score 2.6e-14 257310015161 Signal peptide predicted for BB3084 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.426 between residues 19 and 20; signal peptide 257310015162 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 257310015163 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310015164 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 2e-34 257310015165 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 9.1e-29 257310015166 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310015167 Predicted esterase [General function prediction only]; Region: COG0400 257310015168 putative hydrolase; Provisional; Region: PRK11460 257310015169 HMMPfam hit to PF02230, DE Phospholipase/Carboxylesterase, score 5.2e-29 257310015170 Uncharacterized conserved protein [Function unknown]; Region: COG4544 257310015171 DNA Polymerase Y-family; Region: PolY_like; cd03468 257310015172 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 257310015173 active site 257310015174 DNA binding site [nucleotide binding] 257310015175 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 257310015176 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 257310015177 putative active site [active] 257310015178 putative PHP Thumb interface [polypeptide binding]; other site 257310015179 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 257310015180 generic binding surface II; other site 257310015181 generic binding surface I; other site 257310015182 HMMPfam hit to PF02231, DE PHP domain N-terminal region, score 3.1e-14 257310015183 PS01323 Phosphotriesterase family signature 2. 257310015184 HMMPfam hit to PF01336, DE OB-fold nucleic acid binding domain, score 0.0071 257310015185 PS00030 Eukaryotic RNA-binding region RNP-1 signature. 257310015186 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 257310015187 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 0.00015 257310015188 Predicted transcriptional regulator [Transcription]; Region: COG1959 257310015189 Transcriptional regulator; Region: Rrf2; cl17282 257310015190 HMMPfam hit to PF02082, DE Uncharacterized protein family UPF0074, score 1.7e-29 257310015191 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 257310015192 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 257310015193 heme-binding site [chemical binding]; other site 257310015194 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 257310015195 FAD binding pocket [chemical binding]; other site 257310015196 FAD binding motif [chemical binding]; other site 257310015197 phosphate binding motif [ion binding]; other site 257310015198 beta-alpha-beta structure motif; other site 257310015199 NAD binding pocket [chemical binding]; other site 257310015200 Heme binding pocket [chemical binding]; other site 257310015201 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 7.8e-20 257310015202 HMMPfam hit to PF00970, DE Oxidoreductase FAD-binding domain, score 4.8e-05 257310015203 HMMPfam hit to PF00042, DE Globin, score 6.8e-19 257310015204 Yqey-like protein; Region: YqeY; pfam09424 257310015205 HMMPfam hit to PF02637, DE GatB/Yqey domain, score 3.2e-16 257310015206 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 257310015207 active site 257310015208 DNA polymerase IV; Validated; Region: PRK02406 257310015209 DNA binding site [nucleotide binding] 257310015210 HMMPfam hit to PF00817, DE impB/mucB/samB family, score 2.6e-112 257310015211 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 257310015212 CoenzymeA binding site [chemical binding]; other site 257310015213 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 257310015214 subunit interaction site [polypeptide binding]; other site 257310015215 PHB binding site; other site 257310015216 HMMPfam hit to PF02584, DE Uncharacterized protein PaaI, COG2050, score 9.2e-05 257310015217 Signal peptide predicted for BB3095 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.578 between residues 28 and 29; signal peptide 257310015218 1 probable transmembrane helix predicted for BB3095 by TMHMM2.0 at aa 7-29 257310015219 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310015220 Signal peptide predicted for BB3096 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.925 between residues 23 and 24; signal peptide 257310015221 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 257310015222 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257310015223 Signal peptide predicted for BB3097 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.386 between residues 47 and 48; signal peptide 257310015224 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 257310015225 Transglycosylase; Region: Transgly; pfam00912 257310015226 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 257310015227 HMMPfam hit to PF00912, DE Transglycosylase, score 2.5e-89 257310015228 HMMPfam hit to PF00905, DE Penicillin binding protein transpeptidase domain, score 2.2e-18 257310015229 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 257310015230 active site 257310015231 metal binding site [ion binding]; metal-binding site 257310015232 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 3.4e-09 257310015233 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 257310015234 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 257310015235 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 257310015236 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 257310015237 HMMPfam hit to PF03929, DE Uncharacterized iron-regulated membrane protein (DUF337), score 3.3e-82 257310015238 4 probable transmembrane helices predicted for BB3099 by TMHMM2.0 at aa 16-38, 153-175, 196-218 and 344-366 257310015239 Signal peptide predicted for BB3100 by SignalP 2.0 HMM (Signal peptide probabilty 0.899) with cleavage site probability 0.648 between residues 27 and 28; signal peptide 257310015240 2 probable transmembrane helices predicted for BB3100 by TMHMM2.0 at aa 7-29 and 34-56 257310015241 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 257310015242 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257310015243 active site 257310015244 catalytic tetrad [active] 257310015245 HMMPfam hit to PF00248, DE Aldo/keto reductase family, score 4.3e-73 257310015246 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 257310015247 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257310015248 active site 257310015249 catalytic tetrad [active] 257310015250 HMMPfam hit to PF00248, DE Aldo/keto reductase family, score 1.2e-128 257310015251 PS00063 Aldo/keto reductase family active site signature. 257310015252 PS00062 Aldo/keto reductase family signature 2. 257310015253 PS00798 Aldo/keto reductase family signature 1. 257310015254 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257310015255 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 257310015256 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 257310015257 Walker A/P-loop; other site 257310015258 ATP binding site [chemical binding]; other site 257310015259 Q-loop/lid; other site 257310015260 ABC transporter signature motif; other site 257310015261 Walker B; other site 257310015262 D-loop; other site 257310015263 H-loop/switch region; other site 257310015264 HMMPfam hit to PF00664, DE ABC transporter transmembrane region, score 2.8e-35 257310015265 5 probable transmembrane helices predicted for BB3103 by TMHMM2.0 at aa 21-40, 55-77, 133-155, 159-181 and 242-264 257310015266 HMMPfam hit to PF00005, DE ABC transporter score 3.1e-63 257310015267 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015268 PS00211 ABC transporters family signature. 257310015269 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 257310015270 iron-sulfur cluster [ion binding]; other site 257310015271 [2Fe-2S] cluster binding site [ion binding]; other site 257310015272 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 7e-08 257310015273 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 257310015274 dimerization interface [polypeptide binding]; other site 257310015275 putative active cleft [active] 257310015276 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310015277 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310015278 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 3.5e-85 257310015279 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310015280 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310015281 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 7.9e-78 257310015282 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 257310015283 9 probable transmembrane helices predicted for BB3113 by TMHMM2.0 at aa 13-32, 42-64, 69-91, 96-118, 125-147, 162-184, 197-219, 229-251 and 272-294 257310015284 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 257310015285 PAS domain S-box; Region: sensory_box; TIGR00229 257310015286 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310015287 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310015288 metal binding site [ion binding]; metal-binding site 257310015289 active site 257310015290 I-site; other site 257310015291 HMMPfam hit to PF00990, DE GGDEF domain, score 1.2e-60 257310015292 HMMPfam hit to PF00989, DE PAS domain, score 4.3e-05 257310015293 PAS domain; Region: PAS_9; pfam13426 257310015294 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 257310015295 putative active site [active] 257310015296 heme pocket [chemical binding]; other site 257310015297 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 257310015298 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 257310015299 dimer interface [polypeptide binding]; other site 257310015300 putative CheW interface [polypeptide binding]; other site 257310015301 HMMPfam hit to PF00015, DE Methyl-accepting chemotaxis protein (MCP) signaling domain, score 1.8e-75 257310015302 HMMPfam hit to PF00672, DE HAMP domain, score 0.00016 257310015303 2 probable transmembrane helices predicted for BB3115 by TMHMM2.0 at aa 171-193 and 203-225 257310015304 Signal peptide predicted for BB3116 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.894 between residues 29 and 30; signal peptide 257310015305 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 257310015306 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 257310015307 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 257310015308 HMMPfam hit to PF00563, DE EAL domain, score 7.5e-97 257310015309 2 probable transmembrane helices predicted for BB3116 by TMHMM2.0 at aa 10-32 and 244-266 257310015310 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 257310015311 dimer interface [polypeptide binding]; other site 257310015312 putative tRNA-binding site [nucleotide binding]; other site 257310015313 HMMPfam hit to PF01588, DE tRNA binding domain, score 4.1e-12 257310015314 DoxX; Region: DoxX; pfam07681 257310015315 4 probable transmembrane helices predicted for BB3119 by TMHMM2.0 at aa 13-35, 50-72, 79-101 and 111-130 257310015316 lysine transporter; Provisional; Region: PRK10836 257310015317 HMMPfam hit to PF00324, DE Amino acid permease, score 2e-227 257310015318 12 probable transmembrane helices predicted for BB3120 by TMHMM2.0 at aa 42-64, 69-91, 112-134, 149-171, 178-200, 220-242, 263-285, 309-331, 361-383, 387-409, 430-452 and 467-489 257310015319 PS00218 Amino acid permeases signature. 257310015320 META domain; Region: META; pfam03724 257310015321 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 257310015322 HMMPfam hit to PF03724, DE Domain of unknown function (306), score 1.6e-09 257310015323 Signal peptide predicted for BB3122 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.663 between residues 30 and 31; signal peptide 257310015324 2 probable transmembrane helices predicted for BB3122 by TMHMM2.0 at aa 7-29 and 33-55 257310015325 Signal peptide predicted for BB3123 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.715 between residues 32 and 33; signal peptide 257310015326 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310015327 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.4e-113 257310015328 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 257310015329 active site 257310015330 catalytic residues [active] 257310015331 metal binding site [ion binding]; metal-binding site 257310015332 HMMPfam hit to PF00682, DE HMGL-like, score 2.4e-66 257310015333 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310015334 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310015335 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 4.2e-82 257310015336 Propionate catabolism activator; Region: PrpR_N; pfam06506 257310015337 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 257310015338 PAS domain; Region: PAS; smart00091 257310015339 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310015340 Walker A motif; other site 257310015341 ATP binding site [chemical binding]; other site 257310015342 Walker B motif; other site 257310015343 arginine finger; other site 257310015344 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 257310015345 DNA-binding interface [nucleotide binding]; DNA binding site 257310015346 HMMPfam hit to PF00158, DE Sigma-54 interaction domain, score 8.5e-124 257310015347 PS00675 Sigma-54 interaction domain ATP-binding region A signature. 257310015348 PS00688 Sigma-54 interaction domain C-terminal part signature. 257310015349 HMMPfam hit to PF02954, DE Bacterial regulatory protein, Fis family, score 3.4e-08 257310015350 inner membrane protein; Provisional; Region: PRK10995 257310015351 HMMPfam hit to PF01914, DE MarC family integral membrane protein, score 3.4e-46 257310015352 6 probable transmembrane helices predicted for BB3127 by TMHMM2.0 at aa 15-37, 50-72, 76-98, 131-153, 163-185 and 206-228 257310015353 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 257310015354 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 257310015355 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 257310015356 HMMPfam hit to PF00563, DE EAL domain, score 6.6e-54 257310015357 2 probable transmembrane helices predicted for BB3128 by TMHMM2.0 at aa 27-49 and 250-272 257310015358 1 probable transmembrane helix predicted for BB3129 by TMHMM2.0 at aa 19-41 257310015359 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310015360 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 257310015361 active site 257310015362 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 6.5e-58 257310015363 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 1.4e-11 257310015364 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 7e-12 257310015365 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310015366 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310015367 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 3.1e-61 257310015368 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 257310015369 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310015370 NAD(P) binding site [chemical binding]; other site 257310015371 catalytic residues [active] 257310015372 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 5e-167 257310015373 PS00070 Aldehyde dehydrogenases cysteine active site. 257310015374 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310015375 hypothetical protein; Provisional; Region: PRK07064 257310015376 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310015377 PYR/PP interface [polypeptide binding]; other site 257310015378 dimer interface [polypeptide binding]; other site 257310015379 TPP binding site [chemical binding]; other site 257310015380 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310015381 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 257310015382 TPP-binding site [chemical binding]; other site 257310015383 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 1.2e-19 257310015384 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 1.6e-15 257310015385 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 2.8e-32 257310015386 Signal peptide predicted for BB3135 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.972 between residues 24 and 25; signal peptide 257310015387 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310015388 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.1e-97 257310015389 Signal peptide predicted for BB3136 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 20 and 21; signal peptide 257310015390 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310015391 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.2e-104 257310015392 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310015393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310015394 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310015395 putative dimerization interface [polypeptide binding]; other site 257310015396 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.4e-42 257310015397 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.8e-21 257310015398 PS00044 Bacterial regulatory proteins, lysR family signature. 257310015399 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 257310015400 PS00217 Sugar transport proteins signature 2. 257310015401 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 257310015402 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 257310015403 dimer interface [polypeptide binding]; other site 257310015404 active site 257310015405 DUF35 OB-fold domain; Region: DUF35; pfam01796 257310015406 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 257310015407 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310015408 active site 257310015409 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 0.001 257310015410 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 257310015411 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310015412 acyl-activating enzyme (AAE) consensus motif; other site 257310015413 AMP binding site [chemical binding]; other site 257310015414 active site 257310015415 CoA binding site [chemical binding]; other site 257310015416 PS00190 Cytochrome c family heme-binding site signature. 257310015417 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 257310015418 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 257310015419 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310015420 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310015421 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1e-60 257310015422 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 257310015423 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310015424 catalytic loop [active] 257310015425 iron binding site [ion binding]; other site 257310015426 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 4.7e-07 257310015427 PS00190 Cytochrome c family heme-binding site signature. 257310015428 PS00814 Adrenodoxin family, iron-sulfur binding region signature. 257310015429 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310015430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310015431 NAD(P) binding site [chemical binding]; other site 257310015432 active site 257310015433 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.6e-66 257310015434 PS00061 Short-chain dehydrogenases/reductases family signature. 257310015435 enoyl-CoA hydratase; Provisional; Region: PRK06688 257310015436 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310015437 substrate binding site [chemical binding]; other site 257310015438 oxyanion hole (OAH) forming residues; other site 257310015439 trimer interface [polypeptide binding]; other site 257310015440 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1e-42 257310015441 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 257310015442 inter-subunit interface; other site 257310015443 HMMPfam hit to PF00866, DE Ring hydroxylating beta subunit, score 4.4e-25 257310015444 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 257310015445 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 257310015446 iron-sulfur cluster [ion binding]; other site 257310015447 [2Fe-2S] cluster binding site [ion binding]; other site 257310015448 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 257310015449 putative alpha subunit interface [polypeptide binding]; other site 257310015450 putative active site [active] 257310015451 putative substrate binding site [chemical binding]; other site 257310015452 Fe binding site [ion binding]; other site 257310015453 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00848, DE Ring hydroxylating alpha subunit (catalytic domain), score 6e-11 257310015454 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310015455 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 9.8e-24 257310015456 PS00570 Bacterial ring hydroxylating dioxygenases alpha-subunit signature. 257310015457 Signal peptide predicted for BB3149 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.856 between residues 22 and 23; signal peptide 257310015458 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257310015459 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 257310015460 putative ligand binding site [chemical binding]; other site 257310015461 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310015462 1 probable transmembrane helix predicted for BB3149 by TMHMM2.0 at aa 7-29 257310015463 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 0.001 257310015464 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310015465 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310015466 TM-ABC transporter signature motif; other site 257310015467 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 5.8e-36 257310015468 7 probable transmembrane helices predicted for BB3150 by TMHMM2.0 at aa 7-29, 56-78, 91-113, 136-158, 190-212, 238-257 and 264-283 257310015469 Signal peptide predicted for BB3151 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.795 between residues 42 and 43; signal peptide 257310015470 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310015471 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310015472 TM-ABC transporter signature motif; other site 257310015473 7 probable transmembrane helices predicted for BB3151 by TMHMM2.0 at aa 10-29, 36-58, 78-100, 107-129, 161-183, 251-273 and 288-310 257310015474 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 2.3e-16 257310015475 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310015476 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310015477 Walker A/P-loop; other site 257310015478 ATP binding site [chemical binding]; other site 257310015479 Q-loop/lid; other site 257310015480 ABC transporter signature motif; other site 257310015481 Walker B; other site 257310015482 D-loop; other site 257310015483 H-loop/switch region; other site 257310015484 HMMPfam hit to PF00005, DE ABC transporter score 8.3e-50 257310015485 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015486 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310015487 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310015488 Walker A/P-loop; other site 257310015489 ATP binding site [chemical binding]; other site 257310015490 Q-loop/lid; other site 257310015491 ABC transporter signature motif; other site 257310015492 Walker B; other site 257310015493 D-loop; other site 257310015494 H-loop/switch region; other site 257310015495 HMMPfam hit to PF00005, DE ABC transporter score 1.3e-50 257310015496 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015497 PS00211 ABC transporters family signature. 257310015498 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310015499 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310015500 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 1.5e-13 257310015501 Signal peptide predicted for BB3155 by SignalP 2.0 HMM (Signal peptide probabilty 0.857) with cleavage site probability 0.812 between residues 19 and 20; signal peptide 257310015502 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 257310015503 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310015504 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 5.4e-70 257310015505 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310015506 homotrimer interaction site [polypeptide binding]; other site 257310015507 putative active site [active] 257310015508 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 5.7e-11 257310015509 Signal peptide predicted for BB3157 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.986 between residues 21 and 22; signal peptide 257310015510 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 257310015511 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 257310015512 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 257310015513 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 257310015514 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 257310015515 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 257310015516 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 257310015517 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310015518 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 257310015519 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 257310015520 DNA binding residues [nucleotide binding] 257310015521 HMMPfam hit to PF00140, DE Sigma-70 factor, region 1.2, score 1.6e-125 257310015522 PS00716 Sigma-70 factors family signature 2. 257310015523 PS00715 Sigma-70 factors family signature 1. 257310015524 DNA primase, catalytic core; Region: dnaG; TIGR01391 257310015525 CHC2 zinc finger; Region: zf-CHC2; pfam01807 257310015526 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 257310015527 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 257310015528 interdomain interaction site; other site 257310015529 active site 257310015530 metal binding site [ion binding]; metal-binding site 257310015531 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 257310015532 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 257310015533 HMMPfam hit to PF01751, DE Toprim domain, score 9.5e-24 257310015534 HMMPfam hit to PF01807, DE CHC2 zinc finger, score 1.1e-58 257310015535 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 257310015536 HMMPfam hit to PF01165, DE Ribosomal protein S21, score 1.3e-28 257310015537 PS01181 Ribosomal protein S21 signature. 257310015538 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 257310015539 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257310015540 active site 257310015541 HMMPfam hit to PF00156, DE Phosphoribosyl transferase domain, score 0.00026 257310015542 PS00103 Purine/pyrimidine phosphoribosyl transferases signature. 257310015543 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 257310015544 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 257310015545 GDP-binding site [chemical binding]; other site 257310015546 ACT binding site; other site 257310015547 IMP binding site; other site 257310015548 HMMPfam hit to PF00709, DE Adenylosuccinate synthetase, score 1.5e-256 257310015549 PS00513 Adenylosuccinate synthetase active site. 257310015550 PS01266 Adenylosuccinate synthetase GTP-binding site. 257310015551 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 257310015552 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 257310015553 dimer interface [polypeptide binding]; other site 257310015554 motif 1; other site 257310015555 active site 257310015556 motif 2; other site 257310015557 motif 3; other site 257310015558 Signal peptide predicted for BB3167 by SignalP 2.0 HMM (Signal peptide probabilty 0.934) with cleavage site probability 0.520 between residues 24 and 25; signal peptide 257310015559 HflC protein; Region: hflC; TIGR01932 257310015560 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 257310015561 HMMPfam hit to PF01145, DE SPFH domain / Band 7 family, score 2.4e-33 257310015562 1 probable transmembrane helix predicted for BB3167 by TMHMM2.0 at aa 7-26 257310015563 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310015564 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 257310015565 HflK protein; Region: hflK; TIGR01933 257310015566 HMMPfam hit to PF01145, DE SPFH domain / Band 7 family, score 7.8e-33 257310015567 1 probable transmembrane helix predicted for BB3168 by TMHMM2.0 at aa 29-51 257310015568 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 257310015569 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 257310015570 HflX GTPase family; Region: HflX; cd01878 257310015571 G1 box; other site 257310015572 GTP/Mg2+ binding site [chemical binding]; other site 257310015573 Switch I region; other site 257310015574 G2 box; other site 257310015575 G3 box; other site 257310015576 Switch II region; other site 257310015577 G4 box; other site 257310015578 G5 box; other site 257310015579 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015580 bacterial Hfq-like; Region: Hfq; cd01716 257310015581 hexamer interface [polypeptide binding]; other site 257310015582 Sm1 motif; other site 257310015583 RNA binding site [nucleotide binding]; other site 257310015584 Sm2 motif; other site 257310015585 HMMPfam hit to PF03329, DE Host factor Hfq, score 6.2e-40 257310015586 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 257310015587 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310015588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310015589 homodimer interface [polypeptide binding]; other site 257310015590 catalytic residue [active] 257310015591 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 1.1e-45 257310015592 PS00599 Aminotransferases class-II pyridoxal-phosphate attachment site. 257310015593 GTP-binding protein Der; Reviewed; Region: PRK00093 257310015594 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 257310015595 G1 box; other site 257310015596 GTP/Mg2+ binding site [chemical binding]; other site 257310015597 Switch I region; other site 257310015598 G2 box; other site 257310015599 Switch II region; other site 257310015600 G3 box; other site 257310015601 G4 box; other site 257310015602 G5 box; other site 257310015603 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 257310015604 G1 box; other site 257310015605 GTP/Mg2+ binding site [chemical binding]; other site 257310015606 Switch I region; other site 257310015607 G2 box; other site 257310015608 G3 box; other site 257310015609 Switch II region; other site 257310015610 G4 box; other site 257310015611 G5 box; other site 257310015612 HMMPfam hit to PF01926, DE GTPase of unknown function, score 1.2e-57 257310015613 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015614 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015615 Signal peptide predicted for BB3173 by SignalP 2.0 HMM (Signal peptide probabilty 0.976) with cleavage site probability 0.966 between residues 31 and 32; signal peptide 257310015616 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 257310015617 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 257310015618 Trp docking motif [polypeptide binding]; other site 257310015619 active site 257310015620 HMMPfam hit to PF01011, DE PQQ enzyme repeat, score 33 257310015621 HMMPfam hit to PF01011, DE PQQ enzyme repeat, score 86 257310015622 HMMPfam hit to PF01011, DE PQQ enzyme repeat, score 0.42 257310015623 HMMPfam hit to PF01011, DE PQQ enzyme repeat, score 0.015 257310015624 HMMPfam hit to PF01011, DE PQQ enzyme repeat, score 0.0018 257310015625 HMMPfam hit to PF01011, DE PQQ enzyme repeat, score 15 257310015626 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310015627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 257310015628 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 257310015629 PS00340 Growth factor and cytokines receptors family signature 2. 257310015630 1 probable transmembrane helix predicted for BB3174 by TMHMM2.0 at aa 17-39 257310015631 histidyl-tRNA synthetase; Region: hisS; TIGR00442 257310015632 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 257310015633 dimer interface [polypeptide binding]; other site 257310015634 motif 1; other site 257310015635 active site 257310015636 motif 2; other site 257310015637 motif 3; other site 257310015638 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 257310015639 anticodon binding site; other site 257310015640 HMMPfam hit to PF03129, DE Anticodon binding domain, score 1.5e-10 257310015641 HMMPfam hit to PF00587, DE tRNA synthetase class II core domain (G, H, P, S and T), score 3.3e-35 257310015642 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310015643 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 257310015644 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 257310015645 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 257310015646 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310015647 Signal peptide predicted for BB3177 by SignalP 2.0 HMM (Signal peptide probabilty 0.945) with cleavage site probability 0.476 between residues 19 and 20; signal peptide 257310015648 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310015649 non-specific DNA binding site [nucleotide binding]; other site 257310015650 salt bridge; other site 257310015651 sequence-specific DNA binding site [nucleotide binding]; other site 257310015652 1 probable transmembrane helix predicted for BB3177 by TMHMM2.0 at aa 130-152 257310015653 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 257310015654 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 257310015655 active site 257310015656 multimer interface [polypeptide binding]; other site 257310015657 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00334, DE Nucleoside diphosphate kinase, score 5.6e-69 257310015658 PS00469 Nucleoside diphosphate kinases active site. 257310015659 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 257310015660 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257310015661 active site 257310015662 HIGH motif; other site 257310015663 nucleotide binding site [chemical binding]; other site 257310015664 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 257310015665 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 257310015666 active site 257310015667 KMSKS motif; other site 257310015668 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 257310015669 tRNA binding surface [nucleotide binding]; other site 257310015670 anticodon binding site; other site 257310015671 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 257310015672 HMMPfam hit to PF00133, DE tRNA synthetases class I (I, L, M and V), score 1.5e-245 257310015673 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310015674 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015675 Signal peptide predicted for BB3181 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.981 between residues 23 and 24; signal peptide 257310015676 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 257310015677 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310015678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310015679 active site 257310015680 phosphorylation site [posttranslational modification] 257310015681 intermolecular recognition site; other site 257310015682 dimerization interface [polypeptide binding]; other site 257310015683 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310015684 DNA binding site [nucleotide binding] 257310015685 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.4e-35 257310015686 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 7.6e-20 257310015687 Signal peptide predicted for BB3183 by SignalP 2.0 HMM (Signal peptide probabilty 0.985) with cleavage site probability 0.558 between residues 24 and 25; signal peptide 257310015688 sensor protein QseC; Provisional; Region: PRK10337 257310015689 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310015690 dimer interface [polypeptide binding]; other site 257310015691 phosphorylation site [posttranslational modification] 257310015692 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310015693 ATP binding site [chemical binding]; other site 257310015694 Mg2+ binding site [ion binding]; other site 257310015695 G-X-G motif; other site 257310015696 2 probable transmembrane helices predicted for BB3183 by TMHMM2.0 at aa 7-29 and 152-174 257310015697 HMMPfam hit to PF00672, DE HAMP domain, score 0.022 257310015698 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 8.5e-11 257310015699 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 5.3e-22 257310015700 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 257310015701 homotrimer interaction site [polypeptide binding]; other site 257310015702 putative active site [active] 257310015703 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 7.4e-18 257310015704 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 257310015705 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 257310015706 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310015707 catalytic residue [active] 257310015708 HMMPfam hit to PF00266, DE Aminotransferase class-V, score 1.1e-08 257310015709 PS00595 Aminotransferases class-V pyridoxal-phosphate attachment site. 257310015710 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 257310015711 HMMPfam hit to PF01746, DE tRNA (Guanine-1)-methyltransferase, score 6.6e-103 257310015712 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 257310015713 RimM N-terminal domain; Region: RimM; pfam01782 257310015714 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01782, DE RimM, score 3e-25 257310015715 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 257310015716 HMMPfam hit to PF00886, DE Ribosomal protein S16, score 3.2e-26 257310015717 Signal peptide predicted for BB3189 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.796 between residues 31 and 32; signal peptide 257310015718 PS00443 Glutamine amidotransferases class-II active site. 257310015719 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 257310015720 CPxP motif; other site 257310015721 HMMPfam hit to PF01206, DE Uncharacterized protein family UPF0033, score 2.1e-19 257310015722 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 257310015723 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 257310015724 motif 1; other site 257310015725 active site 257310015726 motif 2; other site 257310015727 motif 3; other site 257310015728 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 257310015729 HMMPfam hit to PF02272, DE DHHA1 domain, score 4.4e-14 257310015730 HMMPfam hit to PF01411, DE tRNA synthetases class II (A), score 0 257310015731 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310015732 Signal peptide predicted for BB3192 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.577 between residues 25 and 26; signal peptide 257310015733 1 probable transmembrane helix predicted for BB3193 by TMHMM2.0 at aa 13-35 257310015734 PS00409 Prokaryotic N-terminal methylation site. 257310015735 3 probable transmembrane helices predicted for BB3194 by TMHMM2.0 at aa 133-155, 188-210 and 339-361 257310015736 Type II/IV secretion system protein; Region: T2SE; pfam00437 257310015737 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 257310015738 Walker A motif; other site 257310015739 ATP binding site [chemical binding]; other site 257310015740 Walker B motif; other site 257310015741 HMMPfam hit to PF00437, DE Type II/IV secretion system protein, score 8.9e-10 257310015742 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015743 Signal peptide predicted for BB3198 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.463 between residues 21 and 22; signal peptide 257310015744 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 257310015745 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 257310015746 HMMPfam hit to PF00263, DE Bacterial type II and III secretion system protein, score 0.0023 257310015747 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310015748 Signal peptide predicted for BB3199 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.403 between residues 26 and 27; signal peptide 257310015749 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 257310015750 VirB7 interaction site; other site 257310015751 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 257310015752 PS00133 Zinc carboxypeptidases, zinc-binding region 2 signature. 257310015753 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310015754 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257310015755 Amidase; Region: Amidase; pfam01425 257310015756 HMMPfam hit to PF01425, DE Amidase, score 5.6e-95 257310015757 PS00216 Sugar transport proteins signature 1. 257310015758 PS00571 Amidases signature. 257310015759 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015760 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 257310015761 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310015762 Walker A/P-loop; other site 257310015763 ATP binding site [chemical binding]; other site 257310015764 Q-loop/lid; other site 257310015765 ABC transporter signature motif; other site 257310015766 Walker B; other site 257310015767 D-loop; other site 257310015768 H-loop/switch region; other site 257310015769 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310015770 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310015771 Walker A/P-loop; other site 257310015772 ATP binding site [chemical binding]; other site 257310015773 Q-loop/lid; other site 257310015774 ABC transporter signature motif; other site 257310015775 Walker B; other site 257310015776 D-loop; other site 257310015777 H-loop/switch region; other site 257310015778 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310015779 HMMPfam hit to PF00005, DE ABC transporter score 5.7e-61 257310015780 PS00211 ABC transporters family signature. 257310015781 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015782 HMMPfam hit to PF00005, DE ABC transporter score 1.6e-57 257310015783 PS00211 ABC transporters family signature. 257310015784 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015785 Signal peptide predicted for BB3202 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.690 between residues 27 and 28; signal peptide 257310015786 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 257310015787 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310015788 dimer interface [polypeptide binding]; other site 257310015789 conserved gate region; other site 257310015790 putative PBP binding loops; other site 257310015791 ABC-ATPase subunit interface; other site 257310015792 5 probable transmembrane helices predicted for BB3202 by TMHMM2.0 at aa 12-34, 76-98, 119-141, 194-216 and 237-259 257310015793 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 6.1e-05 257310015794 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310015795 Signal peptide predicted for BB3203 by SignalP 2.0 HMM (Signal peptide probabilty 0.692) with cleavage site probability 0.226 between residues 20 and 21; signal peptide 257310015796 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310015797 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310015798 dimer interface [polypeptide binding]; other site 257310015799 conserved gate region; other site 257310015800 putative PBP binding loops; other site 257310015801 ABC-ATPase subunit interface; other site 257310015802 6 probable transmembrane helices predicted for BB3203 by TMHMM2.0 at aa 7-29, 99-121, 133-155, 175-197, 236-258 and 286-308 257310015803 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310015804 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.8e-06 257310015805 PS00043 Bacterial regulatory proteins, gntR family signature. 257310015806 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310015807 Signal peptide predicted for BB3204 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.782 between residues 26 and 27; signal peptide 257310015808 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 257310015809 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257310015810 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 4.3e-17 257310015811 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 257310015812 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310015814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310015815 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310015816 putative dimerization interface [polypeptide binding]; other site 257310015817 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.3e-23 257310015818 PS00044 Bacterial regulatory proteins, lysR family signature. 257310015819 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.8e-49 257310015820 Signal peptide predicted for BB3208 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 34 and 35; signal peptide 257310015821 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 257310015822 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 257310015823 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 2.1e-24 257310015824 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 257310015825 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310015826 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 0.0046 257310015827 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 257310015828 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310015829 catalytic loop [active] 257310015830 iron binding site [ion binding]; other site 257310015831 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 257310015832 FAD binding pocket [chemical binding]; other site 257310015833 FAD binding motif [chemical binding]; other site 257310015834 phosphate binding motif [ion binding]; other site 257310015835 beta-alpha-beta structure motif; other site 257310015836 NAD binding pocket [chemical binding]; other site 257310015837 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 5e-34 257310015838 HMMPfam hit to PF00970, DE Oxidoreductase FAD-binding domain, score 8.3e-19 257310015839 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 1.1e-14 257310015840 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310015841 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 257310015842 tetramerization interface [polypeptide binding]; other site 257310015843 active site 257310015844 HMMPfam hit to PF02261, DE Aspartate decarboxylase, score 2.4e-77 257310015845 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 257310015846 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 257310015847 MOSC domain; Region: MOSC; pfam03473 257310015848 HMMPfam hit to PF03473, DE MOSC domain, score 6.6e-26 257310015849 HMMPfam hit to PF03476, DE MOSC N-terminal beta barrel domain, score 6.2e-40 257310015850 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310015851 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310015852 DNA-binding site [nucleotide binding]; DNA binding site 257310015853 UTRA domain; Region: UTRA; pfam07702 257310015854 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.4e-17 257310015855 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 257310015856 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 257310015857 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 257310015858 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 257310015859 HMMPfam hit to PF03812, DE 2-keto-3-deoxygluconate permease, score 5.4e-53 257310015860 10 probable transmembrane helices predicted for BB3216 by TMHMM2.0 at aa 20-37, 42-64, 77-99, 109-131, 144-166, 170-189, 202-224, 229-251, 258-280 and 290-312 257310015861 ectoine hydroxylase; Region: ectoine_ThpD; TIGR02408 257310015862 Ectoine synthase; Region: Ectoine_synth; pfam06339 257310015863 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 257310015864 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310015865 inhibitor-cofactor binding pocket; inhibition site 257310015866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310015867 catalytic residue [active] 257310015868 HMMPfam hit to PF00202, DE Aminotransferase class-III, score 4.8e-89 257310015869 PS00599 Aminotransferases class-II pyridoxal-phosphate attachment site. 257310015870 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310015871 Coenzyme A binding pocket [chemical binding]; other site 257310015872 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 1e-07 257310015873 Transcriptional regulators [Transcription]; Region: MarR; COG1846 257310015874 MarR family; Region: MarR; pfam01047 257310015875 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310015876 HMMPfam hit to PF01047, DE MarR family, score 1.5e-18 257310015877 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 257310015878 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 257310015879 putative active site [active] 257310015880 HMMPfam hit to PF01380, DE SIS domain, score 0.017 257310015881 hypothetical protein; Provisional; Region: PRK07483 257310015882 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310015883 inhibitor-cofactor binding pocket; inhibition site 257310015884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310015885 catalytic residue [active] 257310015886 HMMPfam hit to PF00202, DE Aminotransferase class-III, score 1.5e-119 257310015887 PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site. 257310015888 Signal peptide predicted for BB3224 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.625 between residues 29 and 30; signal peptide 257310015889 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 257310015890 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 257310015891 2 probable transmembrane helices predicted for BB3224 by TMHMM2.0 at aa 13-31 and 41-63 257310015892 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310015893 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310015894 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 257310015895 18 probable transmembrane helices predicted for BB3225 by TMHMM2.0 at aa 26-48, 68-85, 98-115, 125-142, 147-169, 194-216, 292-314, 324-343, 363-385, 389-411, 515-537, 547-569, 576-598, 608-630, 643-665, 670-692, 699-716 and 839-856 257310015896 Protein of unknown function (DUF418); Region: DUF418; pfam04235 257310015897 10 probable transmembrane helices predicted for BB3226 by TMHMM2.0 at aa 16-38, 53-75, 96-115, 119-137, 144-166, 207-229, 242-264, 277-299, 320-342 and 347-369 257310015898 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 257310015899 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 257310015900 CAP-like domain; other site 257310015901 active site 257310015902 primary dimer interface [polypeptide binding]; other site 257310015903 HMMPfam hit to PF00521, DE DNA gyrase/topoisomerase IV, subunit A, score 7.8e-228 257310015904 YcxB-like protein; Region: YcxB; pfam14317 257310015905 2 probable transmembrane helices predicted for BB3228 by TMHMM2.0 at aa 41-63 and 78-100 257310015906 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 257310015907 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310015908 ATP binding site [chemical binding]; other site 257310015909 Mg2+ binding site [ion binding]; other site 257310015910 G-X-G motif; other site 257310015911 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 257310015912 anchoring element; other site 257310015913 dimer interface [polypeptide binding]; other site 257310015914 ATP binding site [chemical binding]; other site 257310015915 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 257310015916 active site 257310015917 metal binding site [ion binding]; metal-binding site 257310015918 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 257310015919 HMMPfam hit to PF00986, DE DNA gyrase B subunit, carboxyl terminus, score 1.3e-24 257310015920 PS00177 DNA topoisomerase II signature. 257310015921 HMMPfam hit to PF00204, DE DNA gyrase B, score 2.2e-20 257310015922 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310015923 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 8.8e-22 257310015924 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 257310015925 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 257310015926 catalytic residues [active] 257310015927 HMMPfam hit to PF00085, DE Thioredoxin, score 6.2e-46 257310015928 PS00194 Thioredoxin family active site. 257310015929 transcription termination factor Rho; Provisional; Region: rho; PRK09376 257310015930 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 257310015931 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 257310015932 RNA binding site [nucleotide binding]; other site 257310015933 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 257310015934 multimer interface [polypeptide binding]; other site 257310015935 Walker A motif; other site 257310015936 ATP binding site [chemical binding]; other site 257310015937 Walker B motif; other site 257310015938 HMMPfam hit to PF00006, DE ATP synthase alpha/beta family, nucleotide-binding domain, score 7.3e-82 257310015939 PS00215 Mitochondrial energy transfer proteins signature. 257310015940 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015941 TIGR02099 family protein; Region: TIGR02099 257310015942 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 257310015943 PS00017 ATP/GTP-binding site motif A (P-loop). 257310015944 1 probable transmembrane helix predicted for BB3232 by TMHMM2.0 at aa 27-49 257310015945 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 257310015946 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 257310015947 metal binding triad; other site 257310015948 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 257310015949 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 257310015950 metal binding triad; other site 257310015951 HMMPfam hit to PF03710, DE Glutamate-ammonia ligase adenylyltransferase, score 3.5e-65 257310015952 HMMPfam hit to PF03710, DE Glutamate-ammonia ligase adenylyltransferase, score 2.2e-77 257310015953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 257310015954 HMMPfam hit to PF02677, DE Uncharacterized BCR, COG1636, score 2.5e-130 257310015955 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 257310015956 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 257310015957 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 257310015958 HMMPfam hit to PF03313, DE Serine dehydratase alpha chain, score 3.3e-170 257310015959 HMMPfam hit to PF03315, DE Serine dehydratase beta chain, score 2.4e-55 257310015960 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 257310015961 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 257310015962 8 probable transmembrane helices predicted for BB3236 by TMHMM2.0 at aa 4-21, 66-88, 98-120, 133-155, 175-197, 210-232, 247-269 and 282-304 257310015963 HMMPfam hit to PF02690, DE Na+/Pi-cotransporter score 1.5e-37 257310015964 Dienelactone hydrolase family; Region: DLH; pfam01738 257310015965 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01738, DE Dienelactone hydrolase family, score 1.2e-73 257310015966 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 257310015967 HMMPfam hit to PF02535, DE ZIP Zinc transporter score 8.4e-11 257310015968 6 probable transmembrane helices predicted for BB3238 by TMHMM2.0 at aa 15-37, 49-71, 112-134, 157-179, 184-206 and 213-235 257310015969 DNA polymerase I; Provisional; Region: PRK05755 257310015970 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 257310015971 active site 257310015972 metal binding site 1 [ion binding]; metal-binding site 257310015973 putative 5' ssDNA interaction site; other site 257310015974 metal binding site 3; metal-binding site 257310015975 metal binding site 2 [ion binding]; metal-binding site 257310015976 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 257310015977 putative DNA binding site [nucleotide binding]; other site 257310015978 putative metal binding site [ion binding]; other site 257310015979 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 257310015980 active site 257310015981 catalytic site [active] 257310015982 substrate binding site [chemical binding]; other site 257310015983 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 257310015984 active site 257310015985 DNA binding site [nucleotide binding] 257310015986 catalytic site [active] 257310015987 HMMPfam hit to PF00476, DE DNA polymerase family A, score 1.4e-192 257310015988 PS00447 DNA polymerase family A signature. 257310015989 HMMPfam hit to PF01612, DE 3'-5' exonuclease, score 2e-39 257310015990 HMMPfam hit to PF01367, DE 5'-3' exonuclease, C-terminal SAM fold, score 3.1e-28 257310015991 HMMPfam hit to PF02739, DE 5'-3' exonuclease, N-terminal resolvase-like domain, score 9.4e-85 257310015992 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 257310015993 Signal peptide predicted for BB3240 by SignalP 2.0 HMM (Signal peptide probabilty 0.619) with cleavage site probability 0.272 between residues 30 and 31; signal peptide 257310015994 HMMPfam hit to PF03641, DE Lysine decarboxylase family, score 1.9e-53 257310015995 Signal peptide predicted for BB3241 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.991 between residues 23 and 24; signal peptide 257310015996 subtilase cytotoxin subunit B-like protein; Provisional; Region: PRK15265; cl14664 257310015997 Signal peptide predicted for BB3242 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.992 between residues 27 and 28; signal peptide 257310015998 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 257310015999 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 257310016000 HMMPfam hit to PF03440, DE Aerolysin/Pertussis toxin (APT) domain, score 1.8e-06 257310016001 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02918, DE Pertussis toxin, subunit 2 and 3, C-terminal domain, score 3.3e-11 257310016002 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 257310016003 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 257310016004 G1 box; other site 257310016005 putative GEF interaction site [polypeptide binding]; other site 257310016006 GTP/Mg2+ binding site [chemical binding]; other site 257310016007 Switch I region; other site 257310016008 G2 box; other site 257310016009 G3 box; other site 257310016010 Switch II region; other site 257310016011 G4 box; other site 257310016012 G5 box; other site 257310016013 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 257310016014 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 257310016015 HMMPfam hit to PF00679, DE Elongation factor G C-terminus, score 3.4e-30 257310016016 HMMPfam hit to PF03144, DE Elongation factor Tu domain 2, score 5.8e-10 257310016017 HMMPfam hit to PF00009, DE Elongation factor Tu GTP binding domain, score 9.8e-68 257310016018 PS00301 GTP-binding elongation factors signature. 257310016019 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016020 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00020 257310016021 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 257310016022 RNA binding site [nucleotide binding]; other site 257310016023 active site 257310016024 HMMPfam hit to PF01509, DE TruB family pseudouridylate synthase (N terminal domain), score 4.1e-67 257310016025 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 257310016026 HMMPfam hit to PF02033, DE Ribosome-binding factor A, score 2.6e-17 257310016027 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 257310016028 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 257310016029 translation initiation factor IF-2; Region: IF-2; TIGR00487 257310016030 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 257310016031 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 257310016032 G1 box; other site 257310016033 putative GEF interaction site [polypeptide binding]; other site 257310016034 GTP/Mg2+ binding site [chemical binding]; other site 257310016035 Switch I region; other site 257310016036 G2 box; other site 257310016037 G3 box; other site 257310016038 Switch II region; other site 257310016039 G4 box; other site 257310016040 G5 box; other site 257310016041 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 257310016042 Translation-initiation factor 2; Region: IF-2; pfam11987 257310016043 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 257310016044 HMMPfam hit to PF03144, DE Elongation factor Tu domain 2, score 3.9e-07 257310016045 PS01176 Initiation factor 2 signature. 257310016046 HMMPfam hit to PF03144, DE Elongation factor Tu domain 2, score 6.8e-17 257310016047 HMMPfam hit to PF00009, DE Elongation factor Tu GTP binding domain, score 2.3e-53 257310016048 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016049 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 257310016050 NusA N-terminal domain; Region: NusA_N; pfam08529 257310016051 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 257310016052 RNA binding site [nucleotide binding]; other site 257310016053 homodimer interface [polypeptide binding]; other site 257310016054 NusA-like KH domain; Region: KH_5; pfam13184 257310016055 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 257310016056 G-X-X-G motif; other site 257310016057 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 257310016058 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 257310016059 HMMPfam hit to PF00013, DE KH domain, score 6.3e-05 257310016060 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 1.4e-06 257310016061 PS00043 Bacterial regulatory proteins, gntR family signature. 257310016062 ribosome maturation protein RimP; Reviewed; Region: PRK00092 257310016063 Sm and related proteins; Region: Sm_like; cl00259 257310016064 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 257310016065 putative oligomer interface [polypeptide binding]; other site 257310016066 putative RNA binding site [nucleotide binding]; other site 257310016067 HMMPfam hit to PF02576, DE Uncharacterized BCR, YhbC family COG0779, score 8.6e-21 257310016068 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 257310016069 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 257310016070 RNA binding surface [nucleotide binding]; other site 257310016071 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 257310016072 probable active site [active] 257310016073 HMMPfam hit to PF00849, DE RNA pseudouridylate synthase, score 5.6e-14 257310016074 PS01149 Rsu family of pseudouridine synthase signature. 257310016075 HMMPfam hit to PF01479, DE S4 domain, score 2e-08 257310016076 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 257310016077 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310016078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310016079 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 257310016080 putative effector binding pocket; other site 257310016081 dimerization interface [polypeptide binding]; other site 257310016082 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5.9e-44 257310016083 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.9e-21 257310016084 PS00044 Bacterial regulatory proteins, lysR family signature. 257310016085 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 257310016086 putative FMN binding site [chemical binding]; other site 257310016087 HMMPfam hit to PF00881, DE Nitroreductase family, score 7.8e-09 257310016088 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 257310016089 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 257310016090 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 257310016091 HMMPfam hit to PF02492, DE Cobalamin synthesis protein/P47K, score 1.2e-60 257310016092 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016093 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 257310016094 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 257310016095 maleylacetoacetate isomerase; Region: maiA; TIGR01262 257310016096 C-terminal domain interface [polypeptide binding]; other site 257310016097 GSH binding site (G-site) [chemical binding]; other site 257310016098 putative dimer interface [polypeptide binding]; other site 257310016099 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 257310016100 dimer interface [polypeptide binding]; other site 257310016101 N-terminal domain interface [polypeptide binding]; other site 257310016102 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 257310016103 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 3.9e-14 257310016104 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 257310016105 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 257310016106 HMMPfam hit to PF02401, DE LytB protein, score 2.9e-163 257310016107 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 257310016108 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 257310016109 HMMPfam hit to PF00254, DE FKBP-type peptidyl-prolyl cis-trans isomerase, score 0.00071 257310016110 hypothetical protein; Reviewed; Region: PRK00024 257310016111 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 257310016112 MPN+ (JAMM) motif; other site 257310016113 Zinc-binding site [ion binding]; other site 257310016114 arylformamidase; Region: trp_arylform; TIGR03035 257310016115 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 257310016116 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03301, DE Tryptophan 2,3-dioxygenase, score 2.6e-97 257310016117 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310016118 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 257310016119 HMMPfam hit to PF01197, DE Ribosomal protein L31, score 4.5e-09 257310016120 PS01143 Ribosomal protein L31 signature. 257310016121 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 257310016122 12 probable transmembrane helices predicted for BB3262 by TMHMM2.0 at aa 20-39, 81-98, 105-127, 147-166, 173-192, 207-229, 242-264, 319-341, 348-367, 377-399, 419-441 and 451-473 257310016123 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 257310016124 multidrug efflux protein; Reviewed; Region: PRK01766 257310016125 cation binding site [ion binding]; other site 257310016126 12 probable transmembrane helices predicted for BB3263 by TMHMM2.0 at aa 21-43, 58-80, 93-115, 135-157, 170-187, 197-219, 244-266, 281-303, 323-345, 355-372, 393-415 and 435-457 257310016127 HMMPfam hit to PF01554, DE Uncharacterized membrane protein family UPF0013, score 4.1e-17 257310016128 PS00267 Tachykinin family signature. 257310016129 HMMPfam hit to PF01554, DE Uncharacterized membrane protein family UPF0013, score 1.6e-19 257310016130 Signal peptide predicted for BB3264 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.992 between residues 28 and 29; signal peptide 257310016131 1 probable transmembrane helix predicted for BB3264 by TMHMM2.0 at aa 7-29 257310016132 Signal peptide predicted for BB3265 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.676 between residues 24 and 25; signal peptide 257310016133 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 257310016134 7 probable transmembrane helices predicted for BB3265 by TMHMM2.0 at aa 13-35, 45-62, 75-97, 102-119, 182-204, 209-231 and 238-255 257310016135 HMMPfam hit to PF01925, DE Domain of unknown function DUF81, score 2.2e-09 257310016136 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 257310016137 DNA repair protein RadA; Provisional; Region: PRK11823 257310016138 Walker A motif; other site 257310016139 ATP binding site [chemical binding]; other site 257310016140 Walker B motif; other site 257310016141 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 257310016142 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016143 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016144 Signal peptide predicted for BB3267 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.331 between residues 33 and 34; signal peptide 257310016145 von Willebrand factor; Region: vWF_A; pfam12450 257310016146 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 257310016147 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 257310016148 metal ion-dependent adhesion site (MIDAS); other site 257310016149 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 257310016150 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016151 HMMPfam hit to PF00092, DE von Willebrand factor type A domain, score 0.00013 257310016152 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016153 RNA polymerase sigma factor; Provisional; Region: PRK12513 257310016154 Signal peptide predicted for BB3268 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.793 between residues 16 and 17; signal peptide 257310016155 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310016156 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 257310016157 DNA binding residues [nucleotide binding] 257310016158 HMMPfam hit to PF00776, , score 2.6e-13 257310016159 1 probable transmembrane helix predicted for BB3269 by TMHMM2.0 at aa 55-74 257310016160 short chain dehydrogenase; Provisional; Region: PRK07577 257310016161 classical (c) SDRs; Region: SDR_c; cd05233 257310016162 NAD(P) binding site [chemical binding]; other site 257310016163 active site 257310016164 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 4.3e-61 257310016165 alanine racemase; Reviewed; Region: alr; PRK00053 257310016166 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 257310016167 active site 257310016168 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 257310016169 substrate binding site [chemical binding]; other site 257310016170 catalytic residues [active] 257310016171 dimer interface [polypeptide binding]; other site 257310016172 HMMPfam hit to PF00842, DE Alanine racemase, score 2.3e-118 257310016173 PS00395 Alanine racemase pyridoxal-phosphate attachment site. 257310016174 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 257310016175 active site lid residues [active] 257310016176 substrate binding pocket [chemical binding]; other site 257310016177 catalytic residues [active] 257310016178 substrate-Mg2+ binding site; other site 257310016179 aspartate-rich region 1; other site 257310016180 aspartate-rich region 2; other site 257310016181 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00494, DE Squalene/phytoene synthase, score 3.1e-17 257310016182 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 257310016183 active site lid residues [active] 257310016184 substrate binding pocket [chemical binding]; other site 257310016185 catalytic residues [active] 257310016186 substrate-Mg2+ binding site; other site 257310016187 aspartate-rich region 1; other site 257310016188 aspartate-rich region 2; other site 257310016189 HMMPfam hit to PF00494, DE Squalene/phytoene synthase, score 1.5e-56 257310016190 PS01044 Squalene and phytoene synthases signature 1. 257310016191 PS01045 Squalene and phytoene synthases signature 2. 257310016192 Signal peptide predicted for BB3274 by SignalP 2.0 HMM (Signal peptide probabilty 0.851) with cleavage site probability 0.458 between residues 20 and 21; signal peptide 257310016193 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257310016194 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 257310016195 HMMPfam hit to PF01593, DE Flavin containing amine oxidoreductase, score 6.8e-16 257310016196 chromosome condensation membrane protein; Provisional; Region: PRK14196 257310016197 4 probable transmembrane helices predicted for BB3275 by TMHMM2.0 at aa 7-25, 35-57, 64-86 and 101-123 257310016198 HMMPfam hit to PF02537, DE CrcB-like protein, score 3.9e-29 257310016199 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 257310016200 6 probable transmembrane helices predicted for BB3276 by TMHMM2.0 at aa 16-38, 42-64, 71-90, 94-116, 129-151 and 156-178 257310016201 ABC-2 type transporter; Region: ABC2_membrane; cl17235 257310016202 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 257310016203 HMMPfam hit to PF01061, DE ABC-2 type transporter score 0.00092 257310016204 5 probable transmembrane helices predicted for BB3277 by TMHMM2.0 at aa 34-56, 61-83, 147-169, 176-198 and 232-254 257310016205 nodulation ABC transporter NodI; Provisional; Region: PRK13537 257310016206 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 257310016207 Walker A/P-loop; other site 257310016208 ATP binding site [chemical binding]; other site 257310016209 Q-loop/lid; other site 257310016210 ABC transporter signature motif; other site 257310016211 Walker B; other site 257310016212 D-loop; other site 257310016213 H-loop/switch region; other site 257310016214 HMMPfam hit to PF00005, DE ABC transporter score 1.2e-60 257310016215 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016216 PS00211 ABC transporters family signature. 257310016217 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016218 Signal peptide predicted for BB3279 by SignalP 2.0 HMM (Signal peptide probabilty 0.988) with cleavage site probability 0.364 between residues 36 and 37; signal peptide 257310016219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 257310016220 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 257310016221 3 probable transmembrane helices predicted for BB3279 by TMHMM2.0 at aa 20-42, 157-179 and 186-208 257310016222 Signal peptide predicted for BB3280 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 20 and 21; signal peptide 257310016223 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 257310016224 Signal peptide predicted for BB3281 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 21 and 22; signal peptide 257310016225 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 257310016226 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 257310016227 ApbE family; Region: ApbE; pfam02424 257310016228 HMMPfam hit to PF02424, DE ApbE family, score 7.3e-82 257310016229 Signal peptide predicted for BB3283 by SignalP 2.0 HMM (Signal peptide probabilty 0.789) with cleavage site probability 0.277 between residues 33 and 34; signal peptide 257310016230 Flavodoxin; Region: Flavodoxin_1; pfam00258 257310016231 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 257310016232 FAD binding pocket [chemical binding]; other site 257310016233 FAD binding motif [chemical binding]; other site 257310016234 catalytic residues [active] 257310016235 NAD binding pocket [chemical binding]; other site 257310016236 phosphate binding motif [ion binding]; other site 257310016237 beta-alpha-beta structure motif; other site 257310016238 1 probable transmembrane helix predicted for BB3283 by TMHMM2.0 at aa 10-27 257310016239 HMMPfam hit to PF00258, DE Flavodoxin, score 1.1e-31 257310016240 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 1.1e-17 257310016241 Signal peptide predicted for BB3284 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 19 and 20; signal peptide 257310016242 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310016243 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-90 257310016244 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 257310016245 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 257310016246 active site 257310016247 putative substrate binding pocket [chemical binding]; other site 257310016248 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 257310016249 Signal peptide predicted for BB3286 by SignalP 2.0 HMM (Signal peptide probabilty 0.801) with cleavage site probability 0.764 between residues 28 and 29; signal peptide 257310016250 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310016251 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310016252 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310016253 putative dimerization interface [polypeptide binding]; other site 257310016254 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.1e-21 257310016255 PS00044 Bacterial regulatory proteins, lysR family signature. 257310016256 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7e-31 257310016257 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 257310016258 putative hydrophobic ligand binding site [chemical binding]; other site 257310016259 protein interface [polypeptide binding]; other site 257310016260 gate; other site 257310016261 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 257310016262 PS00190 Cytochrome c family heme-binding site signature. 257310016263 hypothetical protein; Provisional; Region: PRK02399 257310016264 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 257310016265 PS00290 Immunoglobulins and major histocompatibility complex proteins signature. 257310016266 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 1.1e-07 257310016267 ortholog of Bordetella pertussis (BX470248) BP1201;tracheal colonization factor precursor 257310016268 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 1.4e-77 257310016269 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 257310016270 Autotransporter beta-domain; Region: Autotransporter; pfam03797 257310016271 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03797, DE Autotransporter beta-domain, score 3.2e-85 257310016272 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 257310016273 Clp amino terminal domain; Region: Clp_N; pfam02861 257310016274 Clp amino terminal domain; Region: Clp_N; pfam02861 257310016275 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310016276 Walker A motif; other site 257310016277 ATP binding site [chemical binding]; other site 257310016278 Walker B motif; other site 257310016279 arginine finger; other site 257310016280 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310016281 Walker A motif; other site 257310016282 ATP binding site [chemical binding]; other site 257310016283 Walker B motif; other site 257310016284 arginine finger; other site 257310016285 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 257310016286 PS00871 Chaperonins clpA/B signature 2. 257310016287 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016288 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 1.6e-09 257310016289 PS00870 Chaperonins clpA/B signature 1. 257310016290 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016291 HMMPfam hit to PF02861, DE Clp amino terminal domain, score 5.4e-13 257310016292 HMMPfam hit to PF02861, DE Clp amino terminal domain, score 9.9e-11 257310016293 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 257310016294 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 257310016295 ligand binding site [chemical binding]; other site 257310016296 flexible hinge region; other site 257310016297 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 257310016298 putative switch regulator; other site 257310016299 non-specific DNA interactions [nucleotide binding]; other site 257310016300 DNA binding site [nucleotide binding] 257310016301 sequence specific DNA binding site [nucleotide binding]; other site 257310016302 putative cAMP binding site [chemical binding]; other site 257310016303 HMMPfam hit to PF00027, DE Cyclic nucleotide-binding domain, score 1.1e-09 257310016304 HMMPfam hit to PF00325, DE Bacterial regulatory proteins, crp family, score 7.4e-15 257310016305 PS00042 Bacterial regulatory proteins, crp family signature. 257310016306 Signal peptide predicted for BB3295 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 31 and 32; signal peptide 257310016307 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310016308 catalytic loop [active] 257310016309 iron binding site [ion binding]; other site 257310016310 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 2.7e-12 257310016311 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 257310016312 dimer interface [polypeptide binding]; other site 257310016313 ADP-ribose binding site [chemical binding]; other site 257310016314 active site 257310016315 nudix motif; other site 257310016316 metal binding site [ion binding]; metal-binding site 257310016317 HMMPfam hit to PF00293, DE NUDIX domain, score 3.5e-23 257310016318 PS00893 mutT domain signature. 257310016319 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 257310016320 Signal peptide predicted for BB3299 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.751 between residues 25 and 26; signal peptide 257310016321 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 257310016322 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310016323 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 257310016324 DNA binding residues [nucleotide binding] 257310016325 SnoaL-like domain; Region: SnoaL_2; pfam12680 257310016326 HMMPfam hit to PF00776, , score 3.4e-07 257310016327 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 257310016328 Uncharacterized conserved protein [Function unknown]; Region: COG2128 257310016329 Signal peptide predicted for BB3302 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.653 between residues 21 and 22; signal peptide 257310016330 NlpE N-terminal domain; Region: NlpE; pfam04170 257310016331 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016332 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 257310016333 Protein of unknown function (DUF342); Region: DUF342; pfam03961 257310016334 hypothetical protein; Validated; Region: PRK06201 257310016335 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 257310016336 HMMPfam hit to PF03737, DE Dimethylmenaquinone methyltransferase, score 2.3e-30 257310016337 aspartate aminotransferase; Provisional; Region: PRK06107 257310016338 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310016339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310016340 homodimer interface [polypeptide binding]; other site 257310016341 catalytic residue [active] 257310016342 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 2.9e-66 257310016343 PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site. 257310016344 Signal peptide predicted for BB3307 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 23 and 24; signal peptide 257310016345 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257310016346 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310016347 substrate binding pocket [chemical binding]; other site 257310016348 membrane-bound complex binding site; other site 257310016349 hinge residues; other site 257310016350 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 2.6e-57 257310016351 PS01039 Bacterial extracellular substrate-binding proteins, family 3 signature. 257310016352 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 257310016353 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 257310016354 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310016355 dimer interface [polypeptide binding]; other site 257310016356 conserved gate region; other site 257310016357 putative PBP binding loops; other site 257310016358 ABC-ATPase subunit interface; other site 257310016359 3 probable transmembrane helices predicted for BB3308 by TMHMM2.0 at aa 18-40, 159-181 and 191-213 257310016360 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.9e-09 257310016361 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310016362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310016363 dimer interface [polypeptide binding]; other site 257310016364 conserved gate region; other site 257310016365 putative PBP binding loops; other site 257310016366 ABC-ATPase subunit interface; other site 257310016367 3 probable transmembrane helices predicted for BB3309 by TMHMM2.0 at aa 27-49, 62-84 and 196-218 257310016368 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1e-15 257310016369 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310016370 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310016371 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310016372 Walker A/P-loop; other site 257310016373 ATP binding site [chemical binding]; other site 257310016374 Q-loop/lid; other site 257310016375 ABC transporter signature motif; other site 257310016376 Walker B; other site 257310016377 D-loop; other site 257310016378 H-loop/switch region; other site 257310016379 HMMPfam hit to PF00005, DE ABC transporter score 2.6e-70 257310016380 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016381 PS00211 ABC transporters family signature. 257310016382 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310016383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310016384 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310016385 dimerization interface [polypeptide binding]; other site 257310016386 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 6.4e-14 257310016387 PS00044 Bacterial regulatory proteins, lysR family signature. 257310016388 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5.6e-40 257310016389 Signal peptide predicted for BB3312 by SignalP 2.0 HMM (Signal peptide probabilty 0.926) with cleavage site probability 0.882 between residues 28 and 29; signal peptide 257310016390 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310016391 EamA-like transporter family; Region: EamA; pfam00892 257310016392 10 probable transmembrane helices predicted for BB3312 by TMHMM2.0 at aa 7-28, 38-60, 73-95, 99-116, 123-140, 150-168, 175-197, 207-229, 236-258 and 263-282 257310016393 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 9.2e-06 257310016394 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 8.3e-07 257310016395 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 257310016396 dimer interface [polypeptide binding]; other site 257310016397 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310016398 metal binding site [ion binding]; metal-binding site 257310016399 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00903, DE Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily, score 8.2e-06 257310016400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 257310016401 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0021 257310016402 12 probable transmembrane helices predicted for BB3315 by TMHMM2.0 at aa 37-59, 74-93, 100-122, 126-148, 155-177, 187-209, 239-261, 271-293, 300-322, 327-349, 362-384 and 389-411 257310016403 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 257310016404 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310016405 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 257310016406 putative dimerization interface [polypeptide binding]; other site 257310016407 putative substrate binding pocket [chemical binding]; other site 257310016408 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.3e-27 257310016409 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.9e-51 257310016410 Signal peptide predicted for BB3317 by SignalP 2.0 HMM (Signal peptide probabilty 0.660) with cleavage site probability 0.228 between residues 33 and 34; signal peptide 257310016411 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 257310016412 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 257310016413 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 257310016414 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310016415 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310016416 metal binding site [ion binding]; metal-binding site 257310016417 active site 257310016418 I-site; other site 257310016419 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 257310016420 7 probable transmembrane helices predicted for BB3317 by TMHMM2.0 at aa 10-32, 39-61, 76-98, 107-129, 139-161, 173-195 and 215-237 257310016421 HMMPfam hit to PF03707, DE Bacterial signalling protein N terminal repeat, score 1.7e-21 257310016422 HMMPfam hit to PF03707, DE Bacterial signalling protein N terminal repeat, score 1.6e-15 257310016423 HMMPfam hit to PF03707, DE Bacterial signalling protein N terminal repeat, score 1.2e-07 257310016424 HMMPfam hit to PF00990, DE GGDEF domain, score 7.4e-59 257310016425 HMMPfam hit to PF00563, DE EAL domain, score 3.2e-125 257310016426 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 257310016427 8 probable transmembrane helices predicted for BB3318 by TMHMM2.0 at aa 13-35, 40-59, 72-94, 165-187, 222-244, 248-270, 277-299 and 314-348 257310016428 HMMPfam hit to PF01594, DE Domain of unknown function DUF20, score 8.3e-08 257310016429 ABC-2 type transporter; Region: ABC2_membrane; cl17235 257310016430 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 257310016431 HMMPfam hit to PF01061, DE ABC-2 type transporter score 0.0051 257310016432 7 probable transmembrane helices predicted for BB3319 by TMHMM2.0 at aa 21-43, 58-80, 101-123, 138-160, 167-189, 194-216 and 223-245 257310016433 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 257310016434 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 257310016435 Walker A/P-loop; other site 257310016436 ATP binding site [chemical binding]; other site 257310016437 Q-loop/lid; other site 257310016438 ABC transporter signature motif; other site 257310016439 Walker B; other site 257310016440 D-loop; other site 257310016441 H-loop/switch region; other site 257310016442 HMMPfam hit to PF00005, DE ABC transporter score 4e-56 257310016443 PS00211 ABC transporters family signature. 257310016444 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016445 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 257310016446 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310016447 Coenzyme A binding pocket [chemical binding]; other site 257310016448 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 1.6e-14 257310016449 Signal peptide predicted for BB3322 by SignalP 2.0 HMM (Signal peptide probabilty 0.615) with cleavage site probability 0.450 between residues 35 and 36; signal peptide 257310016450 8 probable transmembrane helices predicted for BB3322 by TMHMM2.0 at aa 5-27, 42-64, 71-89, 99-118, 130-152, 167-189, 194-216 and 226-243 257310016451 PS00962 Ribosomal protein S2 signature 1. 257310016452 Signal peptide predicted for BB3323 by SignalP 2.0 HMM (Signal peptide probabilty 0.982) with cleavage site probability 0.623 between residues 26 and 27; signal peptide 257310016453 2 probable transmembrane helices predicted for BB3323 by TMHMM2.0 at aa 7-29 and 44-66 257310016454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 257310016455 1 probable transmembrane helix predicted for BB3324 by TMHMM2.0 at aa 15-37 257310016456 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016457 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 257310016458 4Fe-4S binding domain; Region: Fer4_5; pfam12801 257310016459 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 257310016460 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 257310016461 5 probable transmembrane helices predicted for BB3325 by TMHMM2.0 at aa 54-76, 104-126, 179-198, 213-232 and 359-378 257310016462 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310016463 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.045 257310016464 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310016465 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 257310016466 Cytochrome c; Region: Cytochrom_C; pfam00034 257310016467 Cytochrome c; Region: Cytochrom_C; pfam00034 257310016468 HMMPfam hit to PF00034, DE Cytochrome c, score 0.0066 257310016469 PS00190 Cytochrome c family heme-binding site signature. 257310016470 HMMPfam hit to PF00034, DE Cytochrome c, score 0.0013 257310016471 PS00190 Cytochrome c family heme-binding site signature. 257310016472 2 probable transmembrane helices predicted for BB3326 by TMHMM2.0 at aa 7-29 and 65-87 257310016473 Signal peptide predicted for BB3327 by SignalP 2.0 HMM (Signal peptide probabilty 0.767) with cleavage site probability 0.380 between residues 29 and 30; signal peptide 257310016474 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 257310016475 1 probable transmembrane helix predicted for BB3327 by TMHMM2.0 at aa 4-26 257310016476 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 257310016477 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 257310016478 HMMPfam hit to PF02433, DE Cytochrome C oxidase, mono-heme subunit/FixO, score 6e-94 257310016479 PS00190 Cytochrome c family heme-binding site signature. 257310016480 1 probable transmembrane helix predicted for BB3328 by TMHMM2.0 at aa 20-42 257310016481 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 257310016482 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 257310016483 Low-spin heme binding site [chemical binding]; other site 257310016484 Putative water exit pathway; other site 257310016485 Binuclear center (active site) [active] 257310016486 Putative proton exit pathway; other site 257310016487 12 probable transmembrane helices predicted for BB3329 by TMHMM2.0 at aa 27-49, 64-86, 99-118, 133-155, 162-184, 209-231, 244-266, 276-298, 311-333, 348-370, 390-409 and 439-461 257310016488 HMMPfam hit to PF00115, DE Cytochrome C and Quinol oxidase polypeptide I, score 3.8e-71 257310016489 PS00077 Heme-copper oxidase catalytic subunit, copper B binding region signature. 257310016490 Signal peptide predicted for BB3330 by SignalP 2.0 HMM (Signal peptide probabilty 0.973) with cleavage site probability 0.394 between residues 28 and 29; signal peptide 257310016491 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 257310016492 HMMPfam hit to PF03597, DE Cytochrome oxidase maturation protein cbb3-type, score 3.1e-10 257310016493 1 probable transmembrane helix predicted for BB3330 by TMHMM2.0 at aa 5-27 257310016494 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 257310016495 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257310016496 6 probable transmembrane helices predicted for BB3331 by TMHMM2.0 at aa 25-47, 62-84, 105-122, 180-199, 206-228 and 278-300 257310016497 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 257310016498 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310016499 inhibitor-cofactor binding pocket; inhibition site 257310016500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310016501 catalytic residue [active] 257310016502 HMMPfam hit to PF00202, DE Aminotransferase class-III, score 1.8e-144 257310016503 PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site. 257310016504 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 257310016505 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 257310016506 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310016507 catalytic residue [active] 257310016508 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 8.2e-32 257310016509 PS00599 Aminotransferases class-II pyridoxal-phosphate attachment site. 257310016510 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 257310016511 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 257310016512 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 257310016513 AAA domain; Region: AAA_26; pfam13500 257310016514 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 257310016515 HMMPfam hit to PF01656, DE Cobyrinic acid a,c-diamide synthase, score 0.0072 257310016516 LrgA family; Region: LrgA; pfam03788 257310016517 HMMPfam hit to PF03788, DE LrgA family, score 3.8e-18 257310016518 3 probable transmembrane helices predicted for BB3336 by TMHMM2.0 at aa 23-45, 57-79 and 84-106 257310016519 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 257310016520 6 probable transmembrane helices predicted for BB3337 by TMHMM2.0 at aa 5-27, 39-61, 67-89, 102-124, 155-177 and 216-238 257310016521 Signal peptide predicted for BB3338 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.416 between residues 23 and 24; signal peptide 257310016522 6 probable transmembrane helices predicted for BB3338 by TMHMM2.0 at aa 5-27, 47-64, 71-90, 95-117, 167-189 and 209-228 257310016523 isocitrate lyase; Provisional; Region: PRK15063 257310016524 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 257310016525 tetramer interface [polypeptide binding]; other site 257310016526 active site 257310016527 Mg2+/Mn2+ binding site [ion binding]; other site 257310016528 HMMPfam hit to PF00463, DE Isocitrate lyase family, score 2.9e-245 257310016529 PS00030 Eukaryotic RNA-binding region RNP-1 signature. 257310016530 PS00161 Isocitrate lyase signature. 257310016531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 257310016532 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 257310016533 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 257310016534 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310016535 HMMPfam hit to PF01227, DE GTP cyclohydrolase I, score 6e-06 257310016536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310016537 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310016538 putative substrate translocation pore; other site 257310016539 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0092 257310016540 12 probable transmembrane helices predicted for BB3341 by TMHMM2.0 at aa 21-43, 58-80, 87-104, 109-126, 146-168, 172-194, 234-256, 271-293, 300-322, 326-348, 361-383 and 388-410 257310016541 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310016542 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 257310016543 HMMPfam hit to PF01066, DE CDP-alcohol phosphatidyltransferase, score 2.8e-36 257310016544 4 probable transmembrane helices predicted for BB3342 by TMHMM2.0 at aa 7-26, 39-58, 65-87 and 156-178 257310016545 PS00379 CDP-alcohol phosphatidyltransferases signature. 257310016546 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 257310016547 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 257310016548 active site 257310016549 catalytic site [active] 257310016550 putative DNA binding site [nucleotide binding]; other site 257310016551 GIY-YIG motif/motif A; other site 257310016552 metal binding site [ion binding]; metal-binding site 257310016553 UvrB/uvrC motif; Region: UVR; pfam02151 257310016554 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 257310016555 HMMPfam hit to PF00633, DE Helix-hairpin-helix motif, score 0.0003 257310016556 HMMPfam hit to PF02151, DE UvrB/uvrC motif, score 3.5e-09 257310016557 HMMPfam hit to PF01541, DE Endo/excinuclease amino terminal domain, score 4.5e-15 257310016558 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 257310016559 beta-hexosaminidase; Provisional; Region: PRK05337 257310016560 HMMPfam hit to PF00933, DE Glycosyl hydrolase family 3 N terminal domain, score 4.7e-47 257310016561 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 257310016562 HMMPfam hit to PF01648, DE 4'-phosphopantetheinyl transferase superfamily, score 5e-19 257310016563 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 257310016564 active site 257310016565 hydrophilic channel; other site 257310016566 dimerization interface [polypeptide binding]; other site 257310016567 catalytic residues [active] 257310016568 active site lid [active] 257310016569 HMMPfam hit to PF03740, DE Pyridoxal phosphate biosynthesis protein PdxJ, score 4.7e-131 257310016570 Signal peptide predicted for BB3347 by SignalP 2.0 HMM (Signal peptide probabilty 0.987) with cleavage site probability 0.776 between residues 25 and 26; signal peptide 257310016571 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 257310016572 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 6.2e-46 257310016573 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 1.5e-42 257310016574 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016575 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 257310016576 Protein export membrane protein; Region: SecD_SecF; cl14618 257310016577 HMMPfam hit to PF00873, DE AcrB/AcrD/AcrF family, score 0 257310016578 12 probable transmembrane helices predicted for BB3348 by TMHMM2.0 at aa 9-28, 340-359, 366-388, 392-414, 438-460, 475-497, 537-556, 870-889, 896-918, 923-945, 966-988 and 1003-1025 257310016579 Signal peptide predicted for BB3349 by SignalP 2.0 HMM (Signal peptide probabilty 0.978) with cleavage site probability 0.675 between residues 23 and 24; signal peptide 257310016580 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 257310016581 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310016582 HMMPfam hit to PF00529, DE hemolysin D, score 1e-67 257310016583 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016584 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310016585 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 257310016586 DNA binding site [nucleotide binding] 257310016587 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 0.00046 257310016588 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 257310016589 Patatin phospholipase; Region: DUF3734; pfam12536 257310016590 HMMPfam hit to PF01734, DE Patatin-like phospholipase, score 4.6e-13 257310016591 ortholog of Bordetella pertussis (BX470248) BP2072; lipoprotein 257310016592 Signal peptide predicted for BB3352 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.775 between residues 26 and 27 257310016593 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016594 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 257310016595 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 257310016596 molybdenum-pterin binding domain; Region: Mop; TIGR00638 257310016597 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 257310016598 HMMPfam hit to PF02573, DE N-terminal HTH domain of molybdenum-binding protein, score 2e-40 257310016599 HMMPfam hit to PF03459, DE TOBE domain, score 1.3e-14 257310016600 HMMPfam hit to PF03459, DE TOBE domain, score 4.6e-17 257310016601 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 257310016602 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310016603 Walker A/P-loop; other site 257310016604 ATP binding site [chemical binding]; other site 257310016605 Q-loop/lid; other site 257310016606 ABC transporter signature motif; other site 257310016607 Walker B; other site 257310016608 D-loop; other site 257310016609 H-loop/switch region; other site 257310016610 HMMPfam hit to PF00005, DE ABC transporter score 5e-40 257310016611 PS00211 ABC transporters family signature. 257310016612 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016613 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310016614 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 257310016615 TM-ABC transporter signature motif; other site 257310016616 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 0.0017 257310016617 8 probable transmembrane helices predicted for BB3355 by TMHMM2.0 at aa 7-29, 59-81, 88-107, 131-153, 179-201, 211-230, 235-254 and 269-286 257310016618 Signal peptide predicted for BB3356 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.987 between residues 27 and 28; signal peptide 257310016619 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 257310016620 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 257310016621 zinc binding site [ion binding]; other site 257310016622 putative ligand binding site [chemical binding]; other site 257310016623 Signal peptide predicted for BB3357 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.918 between residues 18 and 19; signal peptide 257310016624 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 257310016625 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 257310016626 E-class dimer interface [polypeptide binding]; other site 257310016627 P-class dimer interface [polypeptide binding]; other site 257310016628 active site 257310016629 Cu2+ binding site [ion binding]; other site 257310016630 Zn2+ binding site [ion binding]; other site 257310016631 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00080, DE Copper/zinc superoxide dismutase (SODC), score 1.6e-35 257310016632 PS00332 Copper/Zinc superoxide dismutase signature 2. 257310016633 PS00087 Copper/Zinc superoxide dismutase signature 1. 257310016634 Signal peptide predicted for BB3358 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.982 between residues 24 and 25; signal peptide 257310016635 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310016636 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.5e-104 257310016637 1 probable transmembrane helix predicted for BB3358 by TMHMM2.0 at aa 5-27 257310016638 malonyl-CoA synthase; Validated; Region: PRK07514 257310016639 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 257310016640 acyl-activating enzyme (AAE) consensus motif; other site 257310016641 active site 257310016642 AMP binding site [chemical binding]; other site 257310016643 CoA binding site [chemical binding]; other site 257310016644 HMMPfam hit to PF00501, DE AMP-binding protein, score 1.1e-117 257310016645 PS00455 AMP-binding domain signature. 257310016646 enoyl-CoA hydratase; Provisional; Region: PRK06127 257310016647 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310016648 substrate binding site [chemical binding]; other site 257310016649 oxyanion hole (OAH) forming residues; other site 257310016650 trimer interface [polypeptide binding]; other site 257310016651 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.2e-29 257310016652 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 257310016653 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 257310016654 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310016655 DNA-binding site [nucleotide binding]; DNA binding site 257310016656 FCD domain; Region: FCD; pfam07729 257310016657 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 9.9e-13 257310016658 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 257310016659 beta-ketothiolase; Provisional; Region: PRK09051 257310016660 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 257310016661 dimer interface [polypeptide binding]; other site 257310016662 active site 257310016663 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 2.5e-66 257310016664 PS00099 Thiolases active site. 257310016665 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 2.9e-122 257310016666 PS00098 Thiolases acyl-enzyme intermediate signature. 257310016667 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 257310016668 active site 1 [active] 257310016669 dimer interface [polypeptide binding]; other site 257310016670 hexamer interface [polypeptide binding]; other site 257310016671 active site 2 [active] 257310016672 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 257310016673 dimer interface [polypeptide binding]; other site 257310016674 hexamer interface [polypeptide binding]; other site 257310016675 active site 2 [active] 257310016676 HMMPfam hit to PF01361, DE Tautomerase enzyme, score 0.0012 257310016677 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 257310016678 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 257310016679 Walker A/P-loop; other site 257310016680 ATP binding site [chemical binding]; other site 257310016681 Q-loop/lid; other site 257310016682 ABC transporter signature motif; other site 257310016683 Walker B; other site 257310016684 D-loop; other site 257310016685 H-loop/switch region; other site 257310016686 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 257310016687 HMMPfam hit to PF00571, DE CBS domain, score 1.7 257310016688 HMMPfam hit to PF00571, DE CBS domain, score 2.7 257310016689 HMMPfam hit to PF00005, DE ABC transporter score 2.2e-69 257310016690 PS00211 ABC transporters family signature. 257310016691 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016692 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310016693 dimer interface [polypeptide binding]; other site 257310016694 conserved gate region; other site 257310016695 putative PBP binding loops; other site 257310016696 ABC-ATPase subunit interface; other site 257310016697 5 probable transmembrane helices predicted for BB3367 by TMHMM2.0 at aa 71-90, 97-119, 142-164, 224-246 and 251-268 257310016698 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.2e-11 257310016699 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310016700 Signal peptide predicted for BB3368 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 24 and 25; signal peptide 257310016701 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 257310016702 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 257310016703 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 257310016704 Methyltransferase domain; Region: Methyltransf_25; pfam13649 257310016705 HMMPfam hit to PF02353, DE Cyclopropane-fatty-acyl-phospholipid synthase, score 2.3e-58 257310016706 Signal peptide predicted for BB3370 by SignalP 2.0 HMM (Signal peptide probabilty 0.980) with cleavage site probability 0.969 between residues 30 and 31; signal peptide 257310016707 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310016708 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 257310016709 putative substrate translocation pore; other site 257310016710 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0078 257310016711 10 probable transmembrane helices predicted for BB3370 by TMHMM2.0 at aa 7-29, 44-62, 75-94, 99-116, 128-150, 154-176, 207-229, 239-261, 282-304 and 354-376 257310016712 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 257310016713 HMMPfam hit to PF00830, DE Ribosomal L28 family, score 3e-34 257310016714 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 257310016715 HMMPfam hit to PF00471, DE Ribosomal protein L33, score 2e-18 257310016716 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 257310016717 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 257310016718 Sulfate transporter family; Region: Sulfate_transp; pfam00916 257310016719 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 257310016720 HMMPfam hit to PF01740, DE STAS domain, score 1.7e-07 257310016721 PS00626 Regulator of chromosome condensation (RCC1) signature 2. 257310016722 HMMPfam hit to PF00916, DE Sulfate transporter family, score 2.4e-59 257310016723 9 probable transmembrane helices predicted for BB3373 by TMHMM2.0 at aa 61-83, 133-155, 160-182, 213-230, 242-264, 284-306, 366-388, 392-414 and 435-454 257310016724 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 257310016725 IHF - DNA interface [nucleotide binding]; other site 257310016726 IHF dimer interface [polypeptide binding]; other site 257310016727 HMMPfam hit to PF00216, DE Bacterial DNA-binding protein, score 2.4e-13 257310016728 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 257310016729 MarR family; Region: MarR_2; cl17246 257310016730 HMMPfam hit to PF01047, DE MarR family, score 4.6e-28 257310016731 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 257310016732 Signal peptide predicted for BB3376 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.554 between residues 30 and 31; signal peptide 257310016733 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310016734 putative substrate translocation pore; other site 257310016735 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0033 257310016736 10 probable transmembrane helices predicted for BB3376 by TMHMM2.0 at aa 12-34, 44-66, 78-95, 100-122, 135-154, 164-186, 217-239, 249-268, 337-359 and 363-385 257310016737 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016738 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 257310016739 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 257310016740 HIGH motif; other site 257310016741 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 257310016742 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257310016743 active site 257310016744 KMSKS motif; other site 257310016745 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 257310016746 tRNA binding surface [nucleotide binding]; other site 257310016747 HMMPfam hit to PF00133, DE tRNA synthetases class I (I, L, M and V), score 1.3e-139 257310016748 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310016749 Signal peptide predicted for BB3378 by SignalP 2.0 HMM (Signal peptide probabilty 0.804) with cleavage site probability 0.756 between residues 35 and 36; signal peptide 257310016750 Lipopolysaccharide-assembly; Region: LptE; pfam04390 257310016751 1 probable transmembrane helix predicted for BB3378 by TMHMM2.0 at aa 13-35 257310016752 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016753 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 257310016754 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 257310016755 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 257310016756 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 257310016757 putative catalytic cysteine [active] 257310016758 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 1e-06 257310016759 2 probable transmembrane helices predicted for BB3381 by TMHMM2.0 at aa 13-35 and 106-128 257310016760 amidase; Provisional; Region: PRK07487 257310016761 Amidase; Region: Amidase; cl11426 257310016762 HMMPfam hit to PF01425, DE Amidase, score 2.9e-64 257310016763 PS00571 Amidases signature. 257310016764 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 257310016765 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310016766 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310016767 HMMPfam hit to PF02737, DE 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain, score 1.4e-37 257310016768 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 4.4e-15 257310016769 Predicted acetyltransferase [General function prediction only]; Region: COG2388 257310016770 hypothetical protein; Provisional; Region: PRK01842 257310016771 ribonuclease G; Provisional; Region: PRK11712 257310016772 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 257310016773 homodimer interface [polypeptide binding]; other site 257310016774 oligonucleotide binding site [chemical binding]; other site 257310016775 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 2.6e-08 257310016776 Signal peptide predicted for BB3387 by SignalP 2.0 HMM (Signal peptide probabilty 0.702) with cleavage site probability 0.591 between residues 36 and 37; signal peptide 257310016777 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 257310016778 Prephenate dehydratase; Region: PDT; pfam00800 257310016779 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 257310016780 HMMPfam hit to PF00800, DE Prephenate dehydratase, score 2.3e-21 257310016781 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310016782 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310016783 PS01095 Chitinases family 18 active site. 257310016784 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 1e-07 257310016785 Signal peptide predicted for BB3389 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.968 between residues 29 and 30; signal peptide 257310016786 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310016787 putative substrate translocation pore; other site 257310016788 14 probable transmembrane helices predicted for BB3389 by TMHMM2.0 at aa 7-29, 44-66, 79-101, 106-125, 132-154, 159-181, 194-214, 224-242, 263-285, 300-322, 329-346, 356-378, 399-421 and 464-483 257310016789 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 257310016790 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257310016791 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310016792 Walker A/P-loop; other site 257310016793 ATP binding site [chemical binding]; other site 257310016794 Q-loop/lid; other site 257310016795 ABC transporter signature motif; other site 257310016796 Walker B; other site 257310016797 D-loop; other site 257310016798 H-loop/switch region; other site 257310016799 HMMPfam hit to PF00005, DE ABC transporter score 2.1e-57 257310016800 PS00211 ABC transporters family signature. 257310016801 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016802 HMMPfam hit to PF00664, DE ABC transporter transmembrane region, score 2.9e-41 257310016803 5 probable transmembrane helices predicted for BB3390 by TMHMM2.0 at aa 33-55, 70-92, 158-180, 256-278 and 285-302 257310016804 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 257310016805 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 257310016806 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 257310016807 HMMPfam hit to PF01075, DE Glycosyltransferase family 9 (heptosyltransferase), score 2e-91 257310016808 Uncharacterized conserved protein [Function unknown]; Region: COG1434 257310016809 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 257310016810 putative active site [active] 257310016811 HMMPfam hit to PF02698, DE Uncharacterized ACR, COG1434, score 7e-40 257310016812 2 probable transmembrane helices predicted for BB3392 by TMHMM2.0 at aa 10-32 and 39-61 257310016813 Flagellin N-methylase; Region: FliB; pfam03692 257310016814 HMMPfam hit to PF03692, DE Uncharacterised protein family (UPF0153), score 3.7e-49 257310016815 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310016816 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 257310016817 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 6.5e-11 257310016818 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 257310016819 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 257310016820 putative active site [active] 257310016821 putative metal binding site [ion binding]; other site 257310016822 HMMPfam hit to PF01522, DE Polysaccharide deacetylase, score 1.1e-06 257310016823 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 257310016824 Sulfatase; Region: Sulfatase; cl17466 257310016825 HMMPfam hit to PF02418, DE Integral membrane protein of unknown function, score 2.1e-46 257310016826 5 probable transmembrane helices predicted for BB3396 by TMHMM2.0 at aa 7-24, 34-53, 58-80, 106-123 and 135-152 257310016827 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310016828 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 257310016829 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 1.9e-21 257310016830 PS00729 AP endonucleases family 2 signature 1. 257310016831 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 257310016832 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 257310016833 putative metal binding site; other site 257310016834 2 probable transmembrane helices predicted for BB3398 by TMHMM2.0 at aa 195-214 and 224-246 257310016835 HMMPfam hit to PF00535, DE Glycosyl transferase, score 5.5e-23 257310016836 PS00141 Eukaryotic and viral aspartyl proteases active site. 257310016837 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 257310016838 putative active site [active] 257310016839 putative metal binding site [ion binding]; other site 257310016840 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 257310016841 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310016842 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 4e-41 257310016843 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 257310016844 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 257310016845 putative active site [active] 257310016846 putative PHP Thumb interface [polypeptide binding]; other site 257310016847 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 257310016848 generic binding surface I; other site 257310016849 generic binding surface II; other site 257310016850 HMMPfam hit to PF01336, DE OB-fold nucleic acid binding domain, score 2.2e-12 257310016851 HMMPfam hit to PF02811, DE PHP domain C-terminal region, score 7.8e-11 257310016852 HMMPfam hit to PF02231, DE PHP domain N-terminal region, score 2.2e-19 257310016853 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 257310016854 1 probable transmembrane helix predicted for BB3402 by TMHMM2.0 at aa 12-29 257310016855 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 257310016856 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 257310016857 ATP binding site [chemical binding]; other site 257310016858 putative Mg++ binding site [ion binding]; other site 257310016859 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 257310016860 nucleotide binding region [chemical binding]; other site 257310016861 ATP-binding site [chemical binding]; other site 257310016862 Helicase associated domain (HA2); Region: HA2; pfam04408 257310016863 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 257310016864 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 257310016865 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 8.2e-16 257310016866 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016867 ortholog of Bordetella pertussis (BX470248) BP2335; amino-acid acetyltransferase 257310016868 HMMPfam hit to PF00696, DE Amino acid kinase family, score 2.7e-10 257310016869 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 4e-11 257310016870 oxidative damage protection protein; Provisional; Region: PRK05408 257310016871 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 257310016872 Phosphoesterase family; Region: Phosphoesterase; pfam04185 257310016873 Domain of unknown function (DUF756); Region: DUF756; pfam05506 257310016874 transcriptional regulator PhoU; Provisional; Region: PRK11115 257310016875 PhoU domain; Region: PhoU; pfam01895 257310016876 PhoU domain; Region: PhoU; pfam01895 257310016877 HMMPfam hit to PF01895, DE PhoU family, score 2.5e-25 257310016878 HMMPfam hit to PF01895, DE PhoU family, score 6.9e-20 257310016879 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 257310016880 tetramer (dimer of dimers) interface [polypeptide binding]; other site 257310016881 active site 257310016882 dimer interface [polypeptide binding]; other site 257310016883 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 257310016884 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310016885 active site 257310016886 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 7e-41 257310016887 PS00073 Acyl-CoA dehydrogenases signature 2. 257310016888 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 4.2e-27 257310016889 PS00072 Acyl-CoA dehydrogenases signature 1. 257310016890 RmuC family; Region: RmuC; pfam02646 257310016891 1 probable transmembrane helix predicted for BB3410 by TMHMM2.0 at aa 26-48 257310016892 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016893 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 257310016894 3-methyladenine DNA glycosylase; Reviewed; Region: PRK00802 257310016895 HMMPfam hit to PF02245, DE Methylpurine-DNA glycosylase (MPG), score 9.3e-13 257310016896 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 257310016897 ArsC family; Region: ArsC; pfam03960 257310016898 putative catalytic residues [active] 257310016899 HMMPfam hit to PF03960, DE ArsC family, score 1.2e-24 257310016900 Signal peptide predicted for BB3414 by SignalP 2.0 HMM (Signal peptide probabilty 0.678) with cleavage site probability 0.285 between residues 31 and 32; signal peptide 257310016901 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 257310016902 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310016903 dimer interface [polypeptide binding]; other site 257310016904 conserved gate region; other site 257310016905 putative PBP binding loops; other site 257310016906 ABC-ATPase subunit interface; other site 257310016907 6 probable transmembrane helices predicted for BB3414 by TMHMM2.0 at aa 7-29, 68-87, 100-122, 137-156, 181-203 and 239-258 257310016908 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 8.5e-10 257310016909 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310016910 PS00044 Bacterial regulatory proteins, lysR family signature. 257310016911 Signal peptide predicted for BB3415 by SignalP 2.0 HMM (Signal peptide probabilty 0.639) with cleavage site probability 0.499 between residues 40 and 41; signal peptide 257310016912 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310016913 dimer interface [polypeptide binding]; other site 257310016914 conserved gate region; other site 257310016915 putative PBP binding loops; other site 257310016916 ABC-ATPase subunit interface; other site 257310016917 6 probable transmembrane helices predicted for BB3415 by TMHMM2.0 at aa 13-35, 88-110, 117-139, 169-191, 224-246 and 266-288 257310016918 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2e-18 257310016919 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310016920 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 257310016921 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310016922 Walker A/P-loop; other site 257310016923 ATP binding site [chemical binding]; other site 257310016924 Q-loop/lid; other site 257310016925 ABC transporter signature motif; other site 257310016926 Walker B; other site 257310016927 D-loop; other site 257310016928 H-loop/switch region; other site 257310016929 TOBE domain; Region: TOBE_2; pfam08402 257310016930 HMMPfam hit to PF00005, DE ABC transporter score 4.1e-64 257310016931 PS00211 ABC transporters family signature. 257310016932 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016933 Signal peptide predicted for BB3417 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.990 between residues 25 and 26; signal peptide 257310016934 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 257310016935 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 257310016936 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 6e-12 257310016937 PS00017 ATP/GTP-binding site motif A (P-loop). 257310016938 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 257310016939 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 257310016940 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 257310016941 apolar tunnel; other site 257310016942 heme binding site [chemical binding]; other site 257310016943 dimerization interface [polypeptide binding]; other site 257310016944 FtsX-like permease family; Region: FtsX; pfam02687 257310016945 HMMPfam hit to PF02687, DE Predicted permease, score 2e-14 257310016946 10 probable transmembrane helices predicted for BB3420 by TMHMM2.0 at aa 34-56, 272-294, 319-341, 363-385, 405-427, 432-454, 482-504, 719-741, 769-791 and 806-828 257310016947 HMMPfam hit to PF02687, DE Predicted permease, score 2.7e-12 257310016948 Signal peptide predicted for BB3421 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.994 between residues 24 and 25; signal peptide 257310016949 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310016950 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 257310016951 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016952 1 probable transmembrane helix predicted for BB3421 by TMHMM2.0 at aa 5-27 257310016953 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 6.1e-99 257310016954 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310016955 4 probable transmembrane helices predicted for BB3422 by TMHMM2.0 at aa 12-34, 49-68, 89-111 and 126-148 257310016956 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310016957 Signal peptide predicted for BB3423 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.642 between residues 22 and 23; signal peptide 257310016958 DctM-like transporters; Region: DctM; pfam06808 257310016959 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310016960 11 probable transmembrane helices predicted for BB3423 by TMHMM2.0 at aa 7-29, 44-66, 102-124, 139-161, 168-190, 214-233, 238-255, 270-292, 313-335, 355-377 and 390-412 257310016961 HMMPfam hit to PF00597, DE DedA family, score 3.7e-13 257310016962 Signal peptide predicted for BB3424 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 27 and 28; signal peptide 257310016963 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 257310016964 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00419, DE Fimbrial protein, score 7.3e-09 257310016965 Signal peptide predicted for BB3425 by SignalP 2.0 HMM (Signal peptide probabilty 0.953) with cleavage site probability 0.941 between residues 27 and 28; signal peptide 257310016966 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 257310016967 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00419, DE Fimbrial protein, score 2.5e-16 257310016968 Signal peptide predicted for BB3426 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 21 and 22; signal peptide 257310016969 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 257310016970 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00419, DE Fimbrial protein, score 8.2e-18 257310016971 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 257310016972 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 257310016973 active site 257310016974 AMP binding site [chemical binding]; other site 257310016975 homodimer interface [polypeptide binding]; other site 257310016976 acyl-activating enzyme (AAE) consensus motif; other site 257310016977 CoA binding site [chemical binding]; other site 257310016978 HMMPfam hit to PF00501, DE AMP-binding protein, score 4.9e-05 257310016979 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 257310016980 CoenzymeA binding site [chemical binding]; other site 257310016981 subunit interaction site [polypeptide binding]; other site 257310016982 PHB binding site; other site 257310016983 HMMPfam hit to PF02584, DE Uncharacterized protein PaaI, COG2050, score 3.1e-34 257310016984 enoyl-CoA hydratase; Provisional; Region: PRK08140 257310016985 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310016986 substrate binding site [chemical binding]; other site 257310016987 oxyanion hole (OAH) forming residues; other site 257310016988 trimer interface [polypeptide binding]; other site 257310016989 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 257310016990 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.4e-44 257310016991 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 257310016992 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 257310016993 NADP binding site [chemical binding]; other site 257310016994 catalytic residues [active] 257310016995 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 2.8e-08 257310016996 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310016997 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 257310016998 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 257310016999 FAD binding pocket [chemical binding]; other site 257310017000 FAD binding motif [chemical binding]; other site 257310017001 phosphate binding motif [ion binding]; other site 257310017002 beta-alpha-beta structure motif; other site 257310017003 NAD(p) ribose binding residues [chemical binding]; other site 257310017004 NAD binding pocket [chemical binding]; other site 257310017005 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 257310017006 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310017007 catalytic loop [active] 257310017008 iron binding site [ion binding]; other site 257310017009 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 1.8e-12 257310017010 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310017011 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 2.9e-13 257310017012 HMMPfam hit to PF00970, DE Oxidoreductase FAD-binding domain, score 6.2e-17 257310017013 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 257310017014 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 257310017015 HMMPfam hit to PF01883, DE Domain of unknown function DUF59, score 1.2e-17 257310017016 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 257310017017 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 257310017018 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 257310017019 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 257310017020 PaaX-like protein; Region: PaaX; pfam07848 257310017021 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 257310017022 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 257310017023 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 257310017024 HMMPfam hit to PF03853, DE YjeF-related protein N-terminus, score 6.7e-37 257310017025 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 257310017026 catalytic site [active] 257310017027 putative active site [active] 257310017028 putative substrate binding site [chemical binding]; other site 257310017029 dimer interface [polypeptide binding]; other site 257310017030 HMMPfam hit to PF00929, DE Exonuclease, score 1e-35 257310017031 Peptidase family M48; Region: Peptidase_M48; pfam01435 257310017032 7 probable transmembrane helices predicted for BB3439 by TMHMM2.0 at aa 5-27, 76-98, 108-130, 151-173, 183-205, 295-317 and 337-359 257310017033 HMMPfam hit to PF01435, DE Peptidase family M48, score 3.1e-46 257310017034 GTPase RsgA; Reviewed; Region: PRK00098 257310017035 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 257310017036 RNA binding site [nucleotide binding]; other site 257310017037 homodimer interface [polypeptide binding]; other site 257310017038 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 257310017039 GTPase/Zn-binding domain interface [polypeptide binding]; other site 257310017040 GTP/Mg2+ binding site [chemical binding]; other site 257310017041 G4 box; other site 257310017042 G5 box; other site 257310017043 G1 box; other site 257310017044 Switch I region; other site 257310017045 G2 box; other site 257310017046 G3 box; other site 257310017047 Switch II region; other site 257310017048 HMMPfam hit to PF03193, DE Protein of unknown function, DUF258, score 1.7e-48 257310017049 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017050 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 257310017051 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257310017052 active site 257310017053 catalytic tetrad [active] 257310017054 HMMPfam hit to PF00248, DE Aldo/keto reductase family, score 1.5e-46 257310017055 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 257310017056 putative active site [active] 257310017057 putative CoA binding site [chemical binding]; other site 257310017058 nudix motif; other site 257310017059 metal binding site [ion binding]; metal-binding site 257310017060 HMMPfam hit to PF00293, DE NUDIX domain, score 6.6e-16 257310017061 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 257310017062 HMMPfam hit to PF01245, DE Ribosomal protein L19, score 1.1e-53 257310017063 PS01015 Ribosomal protein L19 signature. 257310017064 Signal peptide predicted for BB3444 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.888 between residues 17 and 18; signal peptide 257310017065 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 257310017066 EamA-like transporter family; Region: EamA; cl17759 257310017067 9 probable transmembrane helices predicted for BB3444 by TMHMM2.0 at aa 4-23, 30-52, 57-79, 91-113, 123-145, 152-170, 180-202, 215-237 and 269-288 257310017068 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 0.0041 257310017069 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 0.068 257310017070 1 probable transmembrane helix predicted for BB3445 by TMHMM2.0 at aa 101-123 257310017071 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 257310017072 HMMPfam hit to PF01932, , score 1.3e-33 257310017073 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 257310017074 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 257310017075 CysD dimerization site [polypeptide binding]; other site 257310017076 G1 box; other site 257310017077 putative GEF interaction site [polypeptide binding]; other site 257310017078 GTP/Mg2+ binding site [chemical binding]; other site 257310017079 Switch I region; other site 257310017080 G2 box; other site 257310017081 G3 box; other site 257310017082 Switch II region; other site 257310017083 G4 box; other site 257310017084 G5 box; other site 257310017085 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 257310017086 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 257310017087 HMMPfam hit to PF03144, DE Elongation factor Tu domain 2, score 1.5e-09 257310017088 HMMPfam hit to PF00009, DE Elongation factor Tu GTP binding domain, score 8.1e-58 257310017089 PS00301 GTP-binding elongation factors signature. 257310017090 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017091 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 257310017092 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 257310017093 Active Sites [active] 257310017094 HMMPfam hit to PF01507, DE Phosphoadenosine phosphosulfate reductase family, score 2.4e-50 257310017095 Signal peptide predicted for BB3449 by SignalP 2.0 HMM (Signal peptide probabilty 0.951) with cleavage site probability 0.426 between residues 17 and 18; signal peptide 257310017096 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 257310017097 Active Sites [active] 257310017098 HMMPfam hit to PF01507, DE Phosphoadenosine phosphosulfate reductase family, score 6.4e-67 257310017099 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 257310017100 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 257310017101 Walker A/P-loop; other site 257310017102 ATP binding site [chemical binding]; other site 257310017103 Q-loop/lid; other site 257310017104 ABC transporter signature motif; other site 257310017105 Walker B; other site 257310017106 D-loop; other site 257310017107 H-loop/switch region; other site 257310017108 TOBE-like domain; Region: TOBE_3; pfam12857 257310017109 HMMPfam hit to PF00005, DE ABC transporter score 1e-69 257310017110 PS00211 ABC transporters family signature. 257310017111 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017112 Signal peptide predicted for BB3451 by SignalP 2.0 HMM (Signal peptide probabilty 0.785) with cleavage site probability 0.569 between residues 38 and 39; signal peptide 257310017113 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 257310017114 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310017115 dimer interface [polypeptide binding]; other site 257310017116 conserved gate region; other site 257310017117 putative PBP binding loops; other site 257310017118 ABC-ATPase subunit interface; other site 257310017119 6 probable transmembrane helices predicted for BB3451 by TMHMM2.0 at aa 20-42, 68-90, 102-124, 139-161, 200-222 and 245-267 257310017120 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 6.2e-06 257310017121 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310017122 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 257310017123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310017124 dimer interface [polypeptide binding]; other site 257310017125 conserved gate region; other site 257310017126 putative PBP binding loops; other site 257310017127 ABC-ATPase subunit interface; other site 257310017128 6 probable transmembrane helices predicted for BB3452 by TMHMM2.0 at aa 20-42, 76-98, 110-132, 147-169, 201-223 and 257-279 257310017129 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.1e-17 257310017130 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310017131 Signal peptide predicted for BB3453 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.975 between residues 29 and 30; signal peptide 257310017132 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 257310017133 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 257310017134 HMMPfam hit to PF01100, DE Prokaryotic sulphate- and thiosulphate-binding protein, score 6.2e-184 257310017135 PS00757 Prokaryotic sulfate-binding proteins signature 2. 257310017136 1 probable transmembrane helix predicted for BB3453 by TMHMM2.0 at aa 7-29 257310017137 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 257310017138 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 257310017139 dimer interface [polypeptide binding]; other site 257310017140 decamer (pentamer of dimers) interface [polypeptide binding]; other site 257310017141 catalytic triad [active] 257310017142 HMMPfam hit to PF00578, DE AhpC/TSA family, score 7.5e-55 257310017143 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 257310017144 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 257310017145 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310017146 active site 257310017147 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 257310017148 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 9.2e-51 257310017149 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 1.7e-08 257310017150 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 257310017151 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 257310017152 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 257310017153 PS00696 Electron transfer flavoprotein alpha-subunit signature. 257310017154 HMMPfam hit to PF00766, DE Electron transfer flavoprotein alpha subunit, score 9.5e-122 257310017155 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 257310017156 Ligand binding site [chemical binding]; other site 257310017157 Electron transfer flavoprotein domain; Region: ETF; pfam01012 257310017158 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01012, DE Electron transfer flavoprotein beta subunit, score 1e-119 257310017159 PS01065 Electron transfer flavoprotein beta-subunit signature. 257310017160 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 257310017161 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 257310017162 putative active site [active] 257310017163 Zn binding site [ion binding]; other site 257310017164 HMMPfam hit to PF00850, DE Histone deacetylase family, score 2.6e-84 257310017165 Signal peptide predicted for BB3459 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.694 between residues 36 and 37; signal peptide 257310017166 Transglycosylase SLT domain; Region: SLT_2; pfam13406 257310017167 NIL domain; Region: NIL; cl09633 257310017168 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 257310017169 N-acetyl-D-glucosamine binding site [chemical binding]; other site 257310017170 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310017171 cysteine synthase B; Region: cysM; TIGR01138 257310017172 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 257310017173 dimer interface [polypeptide binding]; other site 257310017174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310017175 catalytic residue [active] 257310017176 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 2.2e-101 257310017177 PS00901 Cysteine synthase/cystathionine beta-synthase P-phosphate attachment site. 257310017178 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 257310017179 Helix-hairpin-helix motif; Region: HHH; pfam00633 257310017180 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 257310017181 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 257310017182 NADP binding site [chemical binding]; other site 257310017183 homopentamer interface [polypeptide binding]; other site 257310017184 substrate binding site [chemical binding]; other site 257310017185 active site 257310017186 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01370, DE NAD dependent epimerase/dehydratase family, score 7.2e-13 257310017187 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 257310017188 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 257310017189 putative ribose interaction site [chemical binding]; other site 257310017190 putative ADP binding site [chemical binding]; other site 257310017191 HMMPfam hit to PF00294, DE pfkB family carbohydrate kinase, score 1.1e-38 257310017192 PS00583 pfkB family of carbohydrate kinases signature 1. 257310017193 tetratricopeptide repeat protein; Provisional; Region: PRK11788 257310017194 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 257310017195 binding surface 257310017196 TPR motif; other site 257310017197 1 probable transmembrane helix predicted for BB3464 by TMHMM2.0 at aa 5-22 257310017198 Signal peptide predicted for BB3465 by SignalP 2.0 HMM (Signal peptide probabilty 0.926) with cleavage site probability 0.510 between residues 28 and 29; signal peptide 257310017199 2 probable transmembrane helices predicted for BB3465 by TMHMM2.0 at aa 5-27 and 42-64 257310017200 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 257310017201 IHF - DNA interface [nucleotide binding]; other site 257310017202 IHF dimer interface [polypeptide binding]; other site 257310017203 HMMPfam hit to PF00216, DE Bacterial DNA-binding protein, score 3.1e-29 257310017204 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 257310017205 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 257310017206 RNA binding site [nucleotide binding]; other site 257310017207 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 257310017208 RNA binding site [nucleotide binding]; other site 257310017209 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 257310017210 RNA binding site [nucleotide binding]; other site 257310017211 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 257310017212 RNA binding site [nucleotide binding]; other site 257310017213 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 257310017214 RNA binding site [nucleotide binding]; other site 257310017215 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 257310017216 RNA binding site [nucleotide binding]; other site 257310017217 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 1.3e-17 257310017218 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 1.7e-20 257310017219 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 1.2e-25 257310017220 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 6.4e-32 257310017221 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 1.5e-16 257310017222 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 2.1e-07 257310017223 cytidylate kinase; Provisional; Region: cmk; PRK00023 257310017224 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 257310017225 CMP-binding site; other site 257310017226 HMMPfam hit to PF02224, DE Cytidylate kinase, score 1.6e-64 257310017227 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 257310017228 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 257310017229 hinge; other site 257310017230 active site 257310017231 HMMPfam hit to PF00275, DE EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase), score 7.1e-186 257310017232 PS00885 EPSP synthase signature 2. 257310017233 PS00104 EPSP synthase signature 1. 257310017234 Signal peptide predicted for BB3470 by SignalP 2.0 HMM (Signal peptide probabilty 0.880) with cleavage site probability 0.781 between residues 30 and 31; signal peptide 257310017235 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 257310017236 prephenate dehydrogenase; Validated; Region: PRK08507 257310017237 HMMPfam hit to PF02153, DE Prephenate dehydrogenase, score 1.3e-81 257310017238 PS00436 Peroxidases active site signature. 257310017239 1 probable transmembrane helix predicted for BB3470 by TMHMM2.0 at aa 13-32 257310017240 Chorismate mutase type II; Region: CM_2; cl00693 257310017241 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 257310017242 Prephenate dehydratase; Region: PDT; pfam00800 257310017243 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 257310017244 putative L-Phe binding site [chemical binding]; other site 257310017245 HMMPfam hit to PF01842, DE ACT domain, score 1.3e-09 257310017246 HMMPfam hit to PF00800, DE Prephenate dehydratase, score 8.6e-81 257310017247 HMMPfam hit to PF01817, DE Chorismate mutase, score 2.4e-13 257310017248 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 257310017249 homodimer interface [polypeptide binding]; other site 257310017250 substrate-cofactor binding pocket; other site 257310017251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310017252 catalytic residue [active] 257310017253 HMMPfam hit to PF00266, DE Aminotransferase class-V, score 3.2e-68 257310017254 DNA gyrase subunit A; Validated; Region: PRK05560 257310017255 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 257310017256 CAP-like domain; other site 257310017257 active site 257310017258 primary dimer interface [polypeptide binding]; other site 257310017259 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257310017260 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257310017261 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257310017262 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257310017263 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257310017264 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 257310017265 HMMPfam hit to PF00521, DE DNA gyrase/topoisomerase IV, subunit A, score 0 257310017266 Signal peptide predicted for BB3474 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.983 between residues 24 and 25; signal peptide 257310017267 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 257310017268 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 257310017269 ligand binding site [chemical binding]; other site 257310017270 HMMPfam hit to PF00691, DE OmpA family, score 7.3e-50 257310017271 PS01068 OmpA-like domain. 257310017272 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 257310017273 Methyltransferase domain; Region: Methyltransf_32; pfam13679 257310017274 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310017275 S-adenosylmethionine binding site [chemical binding]; other site 257310017276 phosphoglycolate phosphatase; Provisional; Region: PRK13226 257310017277 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310017278 motif II; other site 257310017279 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 3.1e-31 257310017280 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 257310017281 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310017282 putative substrate translocation pore; other site 257310017283 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.011 257310017284 12 probable transmembrane helices predicted for BB3477 by TMHMM2.0 at aa 5-27, 42-64, 71-93, 99-121, 128-150, 160-179, 202-224, 237-256, 263-285, 290-312, 325-344 and 354-376 257310017285 Prophage 257310017286 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 257310017287 HMMPfam hit to PF02586, DE Uncharacterized ACR, COG2135, score 4.3e-30 257310017288 1 probable transmembrane helix predicted for BB3480 by TMHMM2.0 at aa 4-21 257310017289 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310017290 Signal peptide predicted for BB3482 by SignalP 2.0 HMM (Signal peptide probabilty 0.989) with cleavage site probability 0.688 between residues 23 and 24; signal peptide 257310017291 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 257310017292 catalytic residue [active] 257310017293 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 257310017294 Phage-related protein, tail component [Function unknown]; Region: COG4733 257310017295 Putative phage tail protein; Region: Phage-tail_3; pfam13550 257310017296 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 257310017297 2 probable transmembrane helices predicted for BB3486 by TMHMM2.0 at aa 94-116 and 123-145 257310017298 NlpC/P60 family; Region: NLPC_P60; cl17555 257310017299 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 257310017300 Phage-related minor tail protein [Function unknown]; Region: COG5281 257310017301 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 257310017302 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 257310017303 PS00165 Serine/threonine dehydratases pyridoxal-phosphate attachment site. 257310017304 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 257310017305 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 257310017306 PS00175 Phosphoglycerate mutase family phosphohistidine signature. 257310017307 Phage tail protein; Region: Phage_tail_3; pfam08813 257310017308 HNH endonuclease; Region: HNH_3; pfam13392 257310017309 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 257310017310 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 257310017311 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 257310017312 Phage terminase large subunit; Region: Terminase_3; cl12054 257310017313 Terminase-like family; Region: Terminase_6; pfam03237 257310017314 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017315 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 257310017316 DNA binding residues [nucleotide binding] 257310017317 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cl17280 257310017318 active site 257310017319 putative DNA-binding cleft [nucleotide binding]; other site 257310017320 dimer interface [polypeptide binding]; other site 257310017321 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 257310017322 Walker A motif; other site 257310017323 ATP binding site [chemical binding]; other site 257310017324 Walker B motif; other site 257310017325 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017326 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 257310017327 PS00190 Cytochrome c family heme-binding site signature. 257310017328 Signal peptide predicted for BB3514 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.915 between residues 22 and 23; signal peptide 257310017329 NinB protein; Region: NinB; pfam05772 257310017330 Bacteriophage CII protein; Region: Phage_CII; pfam05269 257310017331 1 probable transmembrane helix predicted for BB3520 by TMHMM2.0 at aa 127-149 257310017332 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310017333 sequence-specific DNA binding site [nucleotide binding]; other site 257310017334 salt bridge; other site 257310017335 HMMPfam hit to PF01381, DE Helix-turn-helix, score 0.0001 257310017336 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017337 PS00430 TonB-dependent receptor proteins signature 1. 257310017338 Signal peptide predicted for BB3528 by SignalP 2.0 HMM (Signal peptide probabilty 0.838) with cleavage site probability 0.695 between residues 17 and 18; signal peptide 257310017339 Protein of unknown function (DUF968); Region: DUF968; pfam06147 257310017340 Signal peptide predicted for BB3532 by SignalP 2.0 HMM (Signal peptide probabilty 0.653) with cleavage site probability 0.497 between residues 28 and 29; signal peptide 257310017341 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017342 Protein of unknown function, DUF258; Region: DUF258; pfam03193 257310017343 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017344 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 257310017345 Signal peptide predicted for BB3541 by SignalP 2.0 HMM (Signal peptide probabilty 0.939) with cleavage site probability 0.887 between residues 21 and 22; signal peptide 257310017346 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 257310017347 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 257310017348 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 257310017349 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 257310017350 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 257310017351 Int/Topo IB signature motif; other site 257310017352 HMMPfam hit to PF02899, DE Phage integrase, N-terminal SAM-like domain, score 0.19 257310017353 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017354 HMMPfam hit to PF00589, DE Phage integrase family, score 1.6e-05 257310017355 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310017356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310017357 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 257310017358 dimerization interface [polypeptide binding]; other site 257310017359 substrate binding pocket [chemical binding]; other site 257310017360 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.6e-45 257310017361 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.7e-23 257310017362 PS00044 Bacterial regulatory proteins, lysR family signature. 257310017363 Signal peptide predicted for BB3545 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 26 and 27; signal peptide 257310017364 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310017365 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 5.9e-89 257310017366 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 257310017367 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310017368 active site 257310017369 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 257310017370 DUF35 OB-fold domain; Region: DUF35; pfam01796 257310017371 HMMPfam hit to PF01796, DE Domain of unknown function DUF35, score 1.2e-11 257310017372 Signal peptide predicted for BB3549 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.991 between residues 29 and 30; signal peptide 257310017373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310017374 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-37 257310017375 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 257310017376 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310017377 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 257310017378 acyl-activating enzyme (AAE) consensus motif; other site 257310017379 putative AMP binding site [chemical binding]; other site 257310017380 putative active site [active] 257310017381 putative CoA binding site [chemical binding]; other site 257310017382 HMMPfam hit to PF00501, DE AMP-binding protein, score 1.4e-93 257310017383 PS00455 AMP-binding domain signature. 257310017384 Signal peptide predicted for BB3551 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.463 between residues 35 and 36; signal peptide 257310017385 Restriction endonuclease; Region: Mrr_cat; pfam04471 257310017386 2 probable transmembrane helices predicted for BB3551 by TMHMM2.0 at aa 13-35 and 39-61 257310017387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310017388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310017389 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310017390 dimerization interface [polypeptide binding]; other site 257310017391 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 4.7e-19 257310017392 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.1e-17 257310017393 PS00044 Bacterial regulatory proteins, lysR family signature. 257310017394 Signal peptide predicted for BB3553 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.535 between residues 21 and 22; signal peptide 257310017395 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310017396 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.3e-98 257310017397 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 257310017398 active site 257310017399 iron coordination sites [ion binding]; other site 257310017400 substrate binding pocket [chemical binding]; other site 257310017401 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 257310017402 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 257310017403 HMMPfam hit to PF01557, DE Fumarylacetoacetate (FAA) hydrolase family, score 1.2e-52 257310017404 Predicted transcriptional regulators [Transcription]; Region: COG1378 257310017405 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310017406 dimerization interface [polypeptide binding]; other site 257310017407 putative Zn2+ binding site [ion binding]; other site 257310017408 putative DNA binding site [nucleotide binding]; other site 257310017409 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 257310017410 C-terminal domain interface [polypeptide binding]; other site 257310017411 sugar binding site [chemical binding]; other site 257310017412 HMMPfam hit to PF01978, DE Helix-turn-helix family DUF118, score 4.3e-07 257310017413 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 257310017414 HMMPfam hit to PF02679, DE Protein of unknown function (COG1809), score 2.5e-14 257310017415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 257310017416 tricarballylate utilization protein B; Provisional; Region: PRK15033 257310017417 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.0035 257310017418 6 probable transmembrane helices predicted for BB3559 by TMHMM2.0 at aa 124-146, 166-185, 245-267, 277-299, 320-337 and 342-364 257310017419 tricarballylate dehydrogenase; Validated; Region: PRK08274 257310017420 Signal peptide predicted for BB3560 by SignalP 2.0 HMM (Signal peptide probabilty 0.600) with cleavage site probability 0.232 between residues 22 and 23; signal peptide 257310017421 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310017422 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 257310017423 NAD(P) binding site [chemical binding]; other site 257310017424 catalytic residues [active] 257310017425 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 2.3e-111 257310017426 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 257310017427 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 2.8e-67 257310017428 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310017429 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310017430 Walker A/P-loop; other site 257310017431 ATP binding site [chemical binding]; other site 257310017432 Q-loop/lid; other site 257310017433 ABC transporter signature motif; other site 257310017434 Walker B; other site 257310017435 D-loop; other site 257310017436 H-loop/switch region; other site 257310017437 HMMPfam hit to PF00005, DE ABC transporter score 1.9e-55 257310017438 PS00211 ABC transporters family signature. 257310017439 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017440 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310017441 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310017442 dimer interface [polypeptide binding]; other site 257310017443 conserved gate region; other site 257310017444 putative PBP binding loops; other site 257310017445 ABC-ATPase subunit interface; other site 257310017446 7 probable transmembrane helices predicted for BB3564 by TMHMM2.0 at aa 21-39, 80-102, 114-136, 140-162, 182-201, 205-227 and 239-261 257310017447 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 7e-10 257310017448 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310017449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310017450 dimer interface [polypeptide binding]; other site 257310017451 conserved gate region; other site 257310017452 putative PBP binding loops; other site 257310017453 ABC-ATPase subunit interface; other site 257310017454 6 probable transmembrane helices predicted for BB3565 by TMHMM2.0 at aa 92-114, 124-146, 153-172, 192-214, 221-240 and 250-272 257310017455 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.017 257310017456 Signal peptide predicted for BB3566 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 24 and 25; signal peptide 257310017457 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 257310017458 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 257310017459 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310017460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310017461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310017462 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310017463 dimerization interface [polypeptide binding]; other site 257310017464 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 4.9e-17 257310017465 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.3e-25 257310017466 PS00044 Bacterial regulatory proteins, lysR family signature. 257310017467 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310017468 PYR/PP interface [polypeptide binding]; other site 257310017469 dimer interface [polypeptide binding]; other site 257310017470 TPP binding site [chemical binding]; other site 257310017471 hypothetical protein; Provisional; Region: PRK06163 257310017472 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 257310017473 TPP-binding site [chemical binding]; other site 257310017474 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 5.5e-07 257310017475 PS00187 Thiamine pyrophosphate enzymes signature. 257310017476 aspartate aminotransferase; Provisional; Region: PRK05764 257310017477 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310017478 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310017479 homodimer interface [polypeptide binding]; other site 257310017480 catalytic residue [active] 257310017481 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 3.8e-68 257310017482 PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site. 257310017483 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 257310017484 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 257310017485 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 257310017486 HMMPfam hit to PF01968, DE Hydantoinase/oxoprolinase, score 1.5e-150 257310017487 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 257310017488 HMMPfam hit to PF02538, DE Hydantoinase B/oxoprolinase, score 1.5e-44 257310017489 Signal peptide predicted for BB3573 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.774 between residues 23 and 24; signal peptide 257310017490 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310017491 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-92 257310017492 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 257310017493 dimer interface [polypeptide binding]; other site 257310017494 FMN binding site [chemical binding]; other site 257310017495 NADPH bind site [chemical binding]; other site 257310017496 HMMPfam hit to PF00881, DE Nitroreductase family, score 7.6e-25 257310017497 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310017498 putative substrate translocation pore; other site 257310017499 12 probable transmembrane helices predicted for BB3575 by TMHMM2.0 at aa 22-44, 59-81, 88-107, 112-134, 147-169, 174-196, 208-230, 234-252, 272-294, 309-328, 335-357 and 429-451 257310017500 Signal peptide predicted for BB3576 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.610 between residues 31 and 32; signal peptide 257310017501 Cache domain; Region: Cache_1; pfam02743 257310017502 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310017503 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310017504 metal binding site [ion binding]; metal-binding site 257310017505 active site 257310017506 I-site; other site 257310017507 HMMPfam hit to PF00990, DE GGDEF domain, score 1.6e-62 257310017508 HMMPfam hit to PF00672, DE HAMP domain, score 0.21 257310017509 2 probable transmembrane helices predicted for BB3576 by TMHMM2.0 at aa 10-32 and 281-300 257310017510 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 257310017511 Ligand Binding Site [chemical binding]; other site 257310017512 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 257310017513 Ligand Binding Site [chemical binding]; other site 257310017514 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 257310017515 Signal peptide predicted for BB3579 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.962 between residues 26 and 27; signal peptide 257310017516 Transglycosylase SLT domain; Region: SLT_2; pfam13406 257310017517 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 257310017518 N-acetyl-D-glucosamine binding site [chemical binding]; other site 257310017519 catalytic residue [active] 257310017520 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 257310017521 HMMPfam hit to PF01471, DE peptidoglycan binding domain, score 0.00042 257310017522 Signal peptide predicted for BB3580 by SignalP 2.0 HMM (Signal peptide probabilty 0.887) with cleavage site probability 0.849 between residues 19 and 20; signal peptide 257310017523 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 257310017524 dinuclear metal binding motif [ion binding]; other site 257310017525 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 257310017526 Protein of unknown function, DUF482; Region: DUF482; pfam04339 257310017527 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 257310017528 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 257310017529 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 257310017530 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310017531 Walker A/P-loop; other site 257310017532 ATP binding site [chemical binding]; other site 257310017533 Q-loop/lid; other site 257310017534 ABC transporter signature motif; other site 257310017535 Walker B; other site 257310017536 D-loop; other site 257310017537 H-loop/switch region; other site 257310017538 HMMPfam hit to PF00005, DE ABC transporter score 2e-66 257310017539 PS00211 ABC transporters family signature. 257310017540 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017541 HMMPfam hit to PF00664, DE ABC transporter transmembrane region, score 9.8e-42 257310017542 6 probable transmembrane helices predicted for BB3583 by TMHMM2.0 at aa 184-206, 226-248, 302-324, 328-350, 412-434 and 444-461 257310017543 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 257310017544 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257310017545 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257310017546 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257310017547 HMMPfam hit to PF01225, DE Mur ligase family, catalytic domain, score 3e-10 257310017548 HMMPfam hit to PF02875, DE Mur ligase family, glutamate ligase domain, score 0.00032 257310017549 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 257310017550 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257310017551 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257310017552 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257310017553 HMMPfam hit to PF01225, DE Mur ligase family, catalytic domain, score 2.5e-23 257310017554 PS01011 Folylpolyglutamate synthase signature 1. 257310017555 HMMPfam hit to PF02875, DE Mur ligase family, glutamate ligase domain, score 4.4e-11 257310017556 CsbD-like; Region: CsbD; cl17424 257310017557 Signal peptide predicted for BB3587 by SignalP 2.0 HMM (Signal peptide probabilty 0.990) with cleavage site probability 0.435 between residues 26 and 27; signal peptide 257310017558 2 probable transmembrane helices predicted for BB3587 by TMHMM2.0 at aa 7-29 and 33-51 257310017559 Signal peptide predicted for BB3588 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 24 and 25; signal peptide 257310017560 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 257310017561 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 257310017562 HMMPfam hit to PF02567, DE Phenazine biosynthesis-like protein, score 2.3e-40 257310017563 4Fe-4S binding domain; Region: Fer4_5; pfam12801 257310017564 9 probable transmembrane helices predicted for BB3590 by TMHMM2.0 at aa 21-43, 58-80, 113-131, 136-158, 258-280, 326-348, 369-391, 406-424 and 436-458 257310017565 Iron permease FTR1 family; Region: FTR1; cl00475 257310017566 HMMPfam hit to PF03239, DE Iron permease FTR1 family, score 4.6e-08 257310017567 7 probable transmembrane helices predicted for BB3591 by TMHMM2.0 at aa 4-26, 39-61, 71-90, 115-137, 152-174, 187-209 and 244-266 257310017568 Signal peptide predicted for BB3592 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.996 between residues 23 and 24; signal peptide 257310017569 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 257310017570 Signal peptide predicted for BB3593 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 20 and 21; signal peptide 257310017571 Fe2+ transport protein; Region: Iron_transport; pfam10634 257310017572 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 257310017573 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 257310017574 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 257310017575 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 257310017576 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 257310017577 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 257310017578 NAD(P) binding site [chemical binding]; other site 257310017579 homotetramer interface [polypeptide binding]; other site 257310017580 homodimer interface [polypeptide binding]; other site 257310017581 active site 257310017582 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 3e-97 257310017583 PS00061 Short-chain dehydrogenases/reductases family signature. 257310017584 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 257310017585 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 257310017586 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 2.4e-06 257310017587 PS00116 DNA polymerase family B signature. 257310017588 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 257310017589 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 257310017590 HMMPfam hit to PF02578, DE Uncharacterized ACR, YfiH family COG1496, score 4.6e-61 257310017591 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 257310017592 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 257310017593 RNA binding surface [nucleotide binding]; other site 257310017594 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 257310017595 active site 257310017596 HMMPfam hit to PF00849, DE RNA pseudouridylate synthase, score 2.5e-60 257310017597 PS01129 Rlu family of pseudouridine synthase signature. 257310017598 HMMPfam hit to PF01479, DE S4 domain, score 1.9e-07 257310017599 Signal peptide predicted for BB3599 by SignalP 2.0 HMM (Signal peptide probabilty 0.978) with cleavage site probability 0.453 between residues 24 and 25; signal peptide 257310017600 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 257310017601 HMMPfam hit to PF03696, DE Uncharacterised protein family (UPF0169), score 1e-88 257310017602 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310017603 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 257310017604 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 257310017605 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 257310017606 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017607 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 257310017608 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 257310017609 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 257310017610 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 257310017611 RNA binding site [nucleotide binding]; other site 257310017612 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 3.7e-26 257310017613 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 257310017614 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 257310017615 active site 257310017616 HIGH motif; other site 257310017617 dimer interface [polypeptide binding]; other site 257310017618 KMSKS motif; other site 257310017619 HMMPfam hit to PF00579, DE tRNA synthetases class I (W and Y), score 6e-56 257310017620 Signal peptide predicted for BB3603 by SignalP 2.0 HMM (Signal peptide probabilty 0.865) with cleavage site probability 0.479 between residues 20 and 21; signal peptide 257310017621 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 257310017622 2 probable transmembrane helices predicted for BB3603 by TMHMM2.0 at aa 39-61 and 65-87 257310017623 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 257310017624 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 257310017625 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 257310017626 9 probable transmembrane helices predicted for BB3604 by TMHMM2.0 at aa 23-45, 150-172, 210-232, 328-345, 350-372, 393-412, 427-444, 453-472 and 487-506 257310017627 HMMPfam hit to PF03929, DE Uncharacterized iron-regulated membrane protein (DUF337), score 2.2e-23 257310017628 Signal peptide predicted for BB3605 by SignalP 2.0 HMM (Signal peptide probabilty 0.891) with cleavage site probability 0.480 between residues 37 and 38; signal peptide 257310017629 3 probable transmembrane helices predicted for BB3605 by TMHMM2.0 at aa 21-43, 48-70 and 77-96 257310017630 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310017631 Prophage 257310017632 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 257310017633 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 257310017634 catalytic residues [active] 257310017635 Int/Topo IB signature motif; other site 257310017636 HMMPfam hit to PF00589, DE Phage integrase family, score 7.7e-18 257310017637 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 257310017638 HMMPfam hit to PF02086, DE D12 class N6 adenine-specific DNA methyltransferase, score 2.3e-16 257310017639 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 257310017640 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 257310017641 Phage protein GP46; Region: GP46; cl01814 257310017642 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 257310017643 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 257310017644 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017645 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 257310017646 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 257310017647 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 257310017648 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 257310017649 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 257310017650 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 257310017651 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 257310017652 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 257310017653 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 257310017654 Signal peptide predicted for BB3627 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.604 between residues 27 and 28; signal peptide 257310017655 Tumour suppressor, Mitostatin; Region: Trichoplein; pfam13868 257310017656 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 257310017657 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 257310017658 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 257310017659 Protein of unknown function (DUF935); Region: DUF935; pfam06074 257310017660 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 257310017661 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 257310017662 1 probable transmembrane helix predicted for BB3635 by TMHMM2.0 at aa 10-26 257310017663 Signal peptide predicted for BB3637 by SignalP 2.0 HMM (Signal peptide probabilty 0.928) with cleavage site probability 0.474 between residues 21 and 22; signal peptide 257310017664 Signal peptide predicted for BB3638 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.789 between residues 28 and 29; signal peptide 257310017665 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 257310017666 N-acetyl-D-glucosamine binding site [chemical binding]; other site 257310017667 catalytic residue [active] 257310017668 HMMPfam hit to PF01464, DE Transglycosylase SLT domain, score 3e-08 257310017669 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310017670 Signal peptide predicted for BB3639 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.426 between residues 41 and 42; signal peptide 257310017671 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 257310017672 3 probable transmembrane helices predicted for BB3639 by TMHMM2.0 at aa 17-39, 44-63 and 102-124 257310017673 Signal peptide predicted for BB3640 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.960 between residues 22 and 23; signal peptide 257310017674 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 257310017675 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 257310017676 Helix-turn-helix domain; Region: HTH_17; cl17695 257310017677 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 257310017678 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017679 Integrase core domain; Region: rve; pfam00665 257310017680 HMMPfam hit to PF00665, DE Integrase core domain, score 3.8e-07 257310017681 PS00697 ATP-dependent DNA ligase AMP-binding site. 257310017682 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 257310017683 AAA ATPase domain; Region: AAA_16; pfam13191 257310017684 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 257310017685 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017686 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 257310017687 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 257310017688 IHF - DNA interface [nucleotide binding]; other site 257310017689 IHF dimer interface [polypeptide binding]; other site 257310017690 HMMPfam hit to PF00216, DE Bacterial DNA-binding protein, score 6.6e-36 257310017691 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 257310017692 Mor transcription activator family; Region: Mor; pfam08765 257310017693 Signal peptide predicted for BB3658 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.360 between residues 29 and 30; signal peptide 257310017694 Secretin and TonB N terminus short domain; Region: STN; smart00965 257310017695 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 257310017696 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310017697 N-terminal plug; other site 257310017698 ligand-binding site [chemical binding]; other site 257310017699 HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 3.1e-14 257310017700 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 257310017701 FecR protein; Region: FecR; pfam04773 257310017702 RNA polymerase sigma factor; Provisional; Region: PRK12528 257310017703 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310017704 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 257310017705 DNA binding residues [nucleotide binding] 257310017706 HMMPfam hit to PF00776, , score 0.00014 257310017707 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 257310017708 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 257310017709 active site 257310017710 iron coordination sites [ion binding]; other site 257310017711 substrate binding pocket [chemical binding]; other site 257310017712 HMMPfam hit to PF02668, DE Taurine catabolism dioxygenase TauD, TfdA family, score 4.3e-71 257310017713 short chain dehydrogenase; Provisional; Region: PRK07577 257310017714 classical (c) SDRs; Region: SDR_c; cd05233 257310017715 NAD(P) binding site [chemical binding]; other site 257310017716 active site 257310017717 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.2e-46 257310017718 PS00061 Short-chain dehydrogenases/reductases family signature. 257310017719 Signal peptide predicted for BB3663 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 26 and 27; signal peptide 257310017720 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310017721 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.8e-115 257310017722 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 257310017723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310017724 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 257310017725 dimerization interface [polypeptide binding]; other site 257310017726 substrate binding pocket [chemical binding]; other site 257310017727 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 4e-43 257310017728 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.6e-28 257310017729 PS00044 Bacterial regulatory proteins, lysR family signature. 257310017730 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310017731 Signal peptide predicted for BB3665 by SignalP 2.0 HMM (Signal peptide probabilty 0.788) with cleavage site probability 0.743 between residues 26 and 27; signal peptide 257310017732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310017733 NAD(P) binding site [chemical binding]; other site 257310017734 active site 257310017735 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2e-70 257310017736 Predicted ATPase [General function prediction only]; Region: COG1485 257310017737 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310017738 Walker B; other site 257310017739 D-loop; other site 257310017740 H-loop/switch region; other site 257310017741 HMMPfam hit to PF03969, DE AFG1-like ATPase, score 2.7e-138 257310017742 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017743 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310017744 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 257310017745 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310017746 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 257310017747 HMMPfam hit to PF02852, DE Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain, score 4.4e-59 257310017748 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 3.3e-92 257310017749 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 257310017750 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 257310017751 E3 interaction surface; other site 257310017752 lipoyl attachment site [posttranslational modification]; other site 257310017753 e3 binding domain; Region: E3_binding; pfam02817 257310017754 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 257310017755 HMMPfam hit to PF00198, DE 2-oxo acid dehydrogenases acyltransferase (catalytic domain), score 1.1e-138 257310017756 HMMPfam hit to PF02817, DE e3 binding domain, score 5.1e-12 257310017757 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 5.7e-23 257310017758 PS00189 2-oxo acid dehydrogenases acyltransferase lipoyl binding site. 257310017759 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 257310017760 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 257310017761 TPP-binding site [chemical binding]; other site 257310017762 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 257310017763 PS00904 Protein prenyltransferases alpha subunit repeat signature. 257310017764 HMMPfam hit to PF02779, DE Transketolase, pyridine binding domain, score 6.2e-69 257310017765 HMMPfam hit to PF00676, DE Dehydrogenase E1 component, score 3.3e-31 257310017766 Predicted membrane protein [Function unknown]; Region: COG1297 257310017767 putative oligopeptide transporter, OPT family; Region: TIGR00733 257310017768 18 probable transmembrane helices predicted for BB3670 by TMHMM2.0 at aa 21-43, 47-69, 89-111, 115-137, 182-199, 214-236, 241-263, 283-305, 337-359, 374-396, 403-421, 436-455, 476-498, 518-535, 542-561, 576-598, 625-647 and 657-679 257310017769 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310017770 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 257310017771 putative Zn2+ binding site [ion binding]; other site 257310017772 putative DNA binding site [nucleotide binding]; other site 257310017773 AsnC family; Region: AsnC_trans_reg; pfam01037 257310017774 HMMPfam hit to PF01037, DE AsnC family, score 2.8e-45 257310017775 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 257310017776 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 257310017777 dimer interface [polypeptide binding]; other site 257310017778 TPP-binding site [chemical binding]; other site 257310017779 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 257310017780 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 257310017781 Malic enzyme, N-terminal domain; Region: malic; pfam00390 257310017782 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 257310017783 putative NAD(P) binding site [chemical binding]; other site 257310017784 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 257310017785 HMMPfam hit to PF00390, DE Malic enzyme, N-terminal domain, score 2.6e-72 257310017786 HMMPfam hit to PF03949, DE Malic enzyme, NAD binding domain, score 3e-127 257310017787 HMMPfam hit to PF01515, DE Phosphate acetyl/butaryl transferase, score 1e-116 257310017788 Signal peptide predicted for BB3674 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 29 and 30; signal peptide 257310017789 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 257310017790 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00419, DE Fimbrial protein, score 8.4e-15 257310017791 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 257310017792 4 probable transmembrane helices predicted for BB3675 by TMHMM2.0 at aa 5-27, 47-66, 81-103 and 126-148 257310017793 Signal peptide predicted for BB3676 by SignalP 2.0 HMM (Signal peptide probabilty 0.982) with cleavage site probability 0.540 between residues 47 and 48; signal peptide 257310017794 2 probable transmembrane helices predicted for BB3676 by TMHMM2.0 at aa 20-42 and 63-85 257310017795 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 257310017796 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 257310017797 dimer interface [polypeptide binding]; other site 257310017798 active site 257310017799 citrylCoA binding site [chemical binding]; other site 257310017800 NADH binding [chemical binding]; other site 257310017801 cationic pore residues; other site 257310017802 oxalacetate/citrate binding site [chemical binding]; other site 257310017803 coenzyme A binding site [chemical binding]; other site 257310017804 catalytic triad [active] 257310017805 HMMPfam hit to PF00285, DE Citrate synthase, score 2.2e-209 257310017806 PS00480 Citrate synthase signature. 257310017807 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 257310017808 HMMPfam hit to PF03937, DE Domain of unknown function (DUF339), score 1.3e-05 257310017809 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 257310017810 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 257310017811 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310017812 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 0.18 257310017813 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 257310017814 L-aspartate oxidase; Provisional; Region: PRK06175 257310017815 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 257310017816 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02910, DE Fumarate reductase/succinate dehydrogenase flavoprotein C-terminal domain, score 6.7e-61 257310017817 HMMPfam hit to PF00890, DE FAD binding domain, score 4.5e-191 257310017818 PS00504 Fumarate reductase / succinate dehydrogenase FAD-binding site. 257310017819 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 257310017820 SdhC subunit interface [polypeptide binding]; other site 257310017821 proximal heme binding site [chemical binding]; other site 257310017822 cardiolipin binding site; other site 257310017823 Iron-sulfur protein interface; other site 257310017824 proximal quinone binding site [chemical binding]; other site 257310017825 3 probable transmembrane helices predicted for BB3681 by TMHMM2.0 at aa 28-50, 60-82 and 103-125 257310017826 Signal peptide predicted for BB3682 by SignalP 2.0 HMM (Signal peptide probabilty 0.948) with cleavage site probability 0.916 between residues 55 and 56; signal peptide 257310017827 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 257310017828 Iron-sulfur protein interface; other site 257310017829 proximal quinone binding site [chemical binding]; other site 257310017830 SdhD (CybS) interface [polypeptide binding]; other site 257310017831 proximal heme binding site [chemical binding]; other site 257310017832 3 probable transmembrane helices predicted for BB3682 by TMHMM2.0 at aa 36-58, 78-100 and 115-136 257310017833 HMMPfam hit to PF01127, DE Succinate dehydrogenase cytochrome b subunit, score 4.3e-12 257310017834 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310017835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310017836 DNA-binding site [nucleotide binding]; DNA binding site 257310017837 UTRA domain; Region: UTRA; pfam07702 257310017838 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 6.9e-20 257310017839 malate dehydrogenase; Provisional; Region: PRK05442 257310017840 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 257310017841 NAD(P) binding site [chemical binding]; other site 257310017842 dimer interface [polypeptide binding]; other site 257310017843 malate binding site [chemical binding]; other site 257310017844 HMMPfam hit to PF00056, DE lactate/malate dehydrogenase, NAD binding domain, score 6.1e-54 257310017845 HMMPfam hit to PF02866, DE lactate/malate dehydrogenase, alpha/beta C-terminal domain, score 3.5e-33 257310017846 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 257310017847 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 257310017848 tetramer interface [polypeptide binding]; other site 257310017849 active site 257310017850 Mg2+/Mn2+ binding site [ion binding]; other site 257310017851 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 257310017852 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 257310017853 dimer interface [polypeptide binding]; other site 257310017854 active site 257310017855 citrylCoA binding site [chemical binding]; other site 257310017856 oxalacetate/citrate binding site [chemical binding]; other site 257310017857 coenzyme A binding site [chemical binding]; other site 257310017858 catalytic triad [active] 257310017859 HMMPfam hit to PF00285, DE Citrate synthase, score 3e-98 257310017860 PS00480 Citrate synthase signature. 257310017861 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 257310017862 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 257310017863 substrate binding site [chemical binding]; other site 257310017864 ligand binding site [chemical binding]; other site 257310017865 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 257310017866 substrate binding site [chemical binding]; other site 257310017867 HMMPfam hit to PF00330, DE Aconitase family (aconitate hydratase), score 3.4e-151 257310017868 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310017869 HMMPfam hit to PF00694, DE Aconitase C-terminal domain, score 2.1e-30 257310017870 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 257310017871 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 257310017872 2-methylcitrate dehydratase; Region: prpD; TIGR02330 257310017873 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 6e-236 257310017874 Predicted membrane protein [Function unknown]; Region: COG1981 257310017875 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03653, DE Uncharacterised protein family (UPF0093), score 1.4e-27 257310017876 4 probable transmembrane helices predicted for BB3690 by TMHMM2.0 at aa 15-37, 64-86, 96-118 and 131-153 257310017877 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 257310017878 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 257310017879 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310017880 S-adenosylmethionine binding site [chemical binding]; other site 257310017881 HMMPfam hit to PF02926, DE THUMP domain, score 2.4e-10 257310017882 HMMPfam hit to PF01170, DE RNA methylase family UPF0020, score 2.4e-57 257310017883 PS01261 Uncharacterized protein family UPF0020 signature. 257310017884 PS00092 N-6 Adenine-specific DNA methylases signature. 257310017885 RDD family; Region: RDD; pfam06271 257310017886 4 probable transmembrane helices predicted for BB3693 by TMHMM2.0 at aa 21-38, 53-70, 99-121 and 131-146 257310017887 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 257310017888 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 257310017889 putative active site [active] 257310017890 putative metal binding site [ion binding]; other site 257310017891 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 1e-08 257310017892 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 257310017893 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 257310017894 active site 257310017895 acyl-activating enzyme (AAE) consensus motif; other site 257310017896 putative CoA binding site [chemical binding]; other site 257310017897 AMP binding site [chemical binding]; other site 257310017898 HMMPfam hit to PF00501, DE AMP-binding protein, score 4.4e-113 257310017899 PS00455 AMP-binding domain signature. 257310017900 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 257310017901 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 257310017902 trimer interface [polypeptide binding]; other site 257310017903 putative metal binding site [ion binding]; other site 257310017904 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 10 257310017905 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 64 257310017906 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 0.045 257310017907 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 257310017908 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 257310017909 dimerization interface [polypeptide binding]; other site 257310017910 domain crossover interface; other site 257310017911 redox-dependent activation switch; other site 257310017912 HMMPfam hit to PF01430, DE Hsp33 protein, score 3.5e-59 257310017913 1 probable transmembrane helix predicted for BB3698 by TMHMM2.0 at aa 13-35 257310017914 ortholog of Bordetella pertussis (BX470248) BP2381;conserved hypothetical protein (pseudogene) 257310017915 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 257310017916 Uncharacterized conserved protein [Function unknown]; Region: COG2128 257310017917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310017918 NADH(P)-binding; Region: NAD_binding_10; pfam13460 257310017919 NAD(P) binding site [chemical binding]; other site 257310017920 active site 257310017921 PS00097 Aspartate and ornithine carbamoyltransferases signature. 257310017922 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 257310017923 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310017924 DNA binding site [nucleotide binding] 257310017925 Predicted integral membrane protein [Function unknown]; Region: COG5616 257310017926 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 257310017927 TPR motif; other site 257310017928 binding surface 257310017929 TPR repeat; Region: TPR_11; pfam13414 257310017930 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 257310017931 TPR motif; other site 257310017932 TPR repeat; Region: TPR_11; pfam13414 257310017933 binding surface 257310017934 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 0.00018 257310017935 HMMPfam hit to PF00515, DE TPR Domain, score 6.1 257310017936 HMMPfam hit to PF00515, DE TPR Domain, score 8 257310017937 HMMPfam hit to PF00515, DE TPR Domain, score 5.1 257310017938 HMMPfam hit to PF00515, DE TPR Domain, score 1.4 257310017939 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 257310017940 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 257310017941 1 probable transmembrane helix predicted for BB3702 by TMHMM2.0 at aa 5-27 257310017942 enolase; Provisional; Region: eno; PRK00077 257310017943 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 257310017944 dimer interface [polypeptide binding]; other site 257310017945 metal binding site [ion binding]; metal-binding site 257310017946 substrate binding pocket [chemical binding]; other site 257310017947 HMMPfam hit to PF00113, DE Enolase, C-terminal TIM barrel domain, score 2.1e-169 257310017948 PS00164 Enolase signature. 257310017949 HMMPfam hit to PF03952, DE Enolase, N-terminal domain, score 4.7e-60 257310017950 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 257310017951 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 257310017952 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 257310017953 HMMPfam hit to PF00793, DE DAHP synthetase I family, score 6.6e-105 257310017954 PS00017 ATP/GTP-binding site motif A (P-loop). 257310017955 PS00284 Serpins signature. 257310017956 CTP synthetase; Validated; Region: pyrG; PRK05380 257310017957 Signal peptide predicted for BB3706 by SignalP 2.0 HMM (Signal peptide probabilty 0.958) with cleavage site probability 0.925 between residues 25 and 26; signal peptide 257310017958 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 257310017959 Catalytic site [active] 257310017960 active site 257310017961 UTP binding site [chemical binding]; other site 257310017962 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 257310017963 active site 257310017964 putative oxyanion hole; other site 257310017965 catalytic triad [active] 257310017966 HMMPfam hit to PF00117, DE Glutamine amidotransferase class-I, score 4.3e-71 257310017967 PS00442 Glutamine amidotransferases class-I active site. 257310017968 1 probable transmembrane helix predicted for BB3706 by TMHMM2.0 at aa 5-27 257310017969 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 257310017970 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 257310017971 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 257310017972 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 257310017973 active site 257310017974 HMMPfam hit to PF00557, DE metallopeptidase family M24, score 6.3e-08 257310017975 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 257310017976 SxDxEG motif; other site 257310017977 active site 257310017978 metal binding site [ion binding]; metal-binding site 257310017979 homopentamer interface [polypeptide binding]; other site 257310017980 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 257310017981 homodimer interface [polypeptide binding]; other site 257310017982 homotetramer interface [polypeptide binding]; other site 257310017983 active site pocket [active] 257310017984 cleavage site 257310017985 HMMPfam hit to PF03576, DE Peptidase family T4, score 4.5e-83 257310017986 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 257310017987 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 257310017988 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310017989 dimer interface [polypeptide binding]; other site 257310017990 conserved gate region; other site 257310017991 putative PBP binding loops; other site 257310017992 ABC-ATPase subunit interface; other site 257310017993 6 probable transmembrane helices predicted for BB3710 by TMHMM2.0 at aa 34-56, 104-126, 138-155, 159-178, 220-242 and 262-284 257310017994 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.004 257310017995 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 257310017996 Signal peptide predicted for BB3711 by SignalP 2.0 HMM (Signal peptide probabilty 0.960) with cleavage site probability 0.324 between residues 38 and 39; signal peptide 257310017997 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310017998 dimer interface [polypeptide binding]; other site 257310017999 conserved gate region; other site 257310018000 putative PBP binding loops; other site 257310018001 ABC-ATPase subunit interface; other site 257310018002 6 probable transmembrane helices predicted for BB3711 by TMHMM2.0 at aa 9-31, 100-122, 135-157, 172-191, 227-249 and 277-299 257310018003 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4.8e-09 257310018004 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310018005 Signal peptide predicted for BB3712 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 28 and 29; signal peptide 257310018006 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 257310018007 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 257310018008 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 2.6e-76 257310018009 PS01040 Bacterial extracellular substrate-binding proteins, family 5 signature. 257310018010 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 257310018011 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310018012 Walker A/P-loop; other site 257310018013 ATP binding site [chemical binding]; other site 257310018014 Q-loop/lid; other site 257310018015 ABC transporter signature motif; other site 257310018016 Walker B; other site 257310018017 D-loop; other site 257310018018 H-loop/switch region; other site 257310018019 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 257310018020 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310018021 Walker A/P-loop; other site 257310018022 ATP binding site [chemical binding]; other site 257310018023 Q-loop/lid; other site 257310018024 ABC transporter signature motif; other site 257310018025 Walker B; other site 257310018026 D-loop; other site 257310018027 H-loop/switch region; other site 257310018028 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 257310018029 HMMPfam hit to PF00005, DE ABC transporter score 3e-56 257310018030 PS00211 ABC transporters family signature. 257310018031 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018032 HMMPfam hit to PF00005, DE ABC transporter score 5.2e-57 257310018033 PS00211 ABC transporters family signature. 257310018034 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018035 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 257310018036 catalytic nucleophile [active] 257310018037 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01112, DE Asparaginase, score 6.3e-115 257310018038 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 257310018039 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 257310018040 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 257310018041 putative active site [active] 257310018042 HMMPfam hit to PF01380, DE SIS domain, score 0.032 257310018043 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 257310018044 HMMPfam hit to PF01144, DE Coenzyme A transferase, score 3e-59 257310018045 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310018046 PS01274 CoA transferases signature 2. 257310018047 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 257310018048 HMMPfam hit to PF01144, DE Coenzyme A transferase, score 5e-117 257310018049 PS01273 CoA transferases signature 1. 257310018050 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 257310018051 active site 257310018052 HMMPfam hit to PF03061, DE 4-hydroxybenzoyl-CoA thioesterase, score 0.00026 257310018053 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 257310018054 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 257310018055 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 257310018056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310018057 NAD(P) binding site [chemical binding]; other site 257310018058 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 257310018059 active site 257310018060 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 257310018061 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310018062 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 257310018063 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 257310018064 tetramer interface [polypeptide binding]; other site 257310018065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310018066 catalytic residue [active] 257310018067 Signal peptide predicted for BB3724 by SignalP 2.0 HMM (Signal peptide probabilty 0.715) with cleavage site probability 0.591 between residues 22 and 23; signal peptide 257310018068 EamA-like transporter family; Region: EamA; pfam00892 257310018069 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 257310018070 EamA-like transporter family; Region: EamA; pfam00892 257310018071 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 5.4e-28 257310018072 9 probable transmembrane helices predicted for BB3724 by TMHMM2.0 at aa 10-32, 41-63, 90-112, 125-147, 152-169, 182-204, 214-236, 243-265 and 270-287 257310018073 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 3.7e-18 257310018074 acetyl-CoA synthetase; Provisional; Region: PRK00174 257310018075 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 257310018076 active site 257310018077 CoA binding site [chemical binding]; other site 257310018078 acyl-activating enzyme (AAE) consensus motif; other site 257310018079 AMP binding site [chemical binding]; other site 257310018080 acetate binding site [chemical binding]; other site 257310018081 HMMPfam hit to PF00501, DE AMP-binding protein, score 5.2e-125 257310018082 PS00455 AMP-binding domain signature. 257310018083 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 257310018084 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310018085 putative substrate translocation pore; other site 257310018086 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0062 257310018087 12 probable transmembrane helices predicted for BB3726 by TMHMM2.0 at aa 35-57, 72-94, 107-126, 132-154, 167-189, 204-226, 263-285, 295-317, 326-345, 349-371, 384-406 and 416-435 257310018088 Domain of unknown function (DUF336); Region: DUF336; cl01249 257310018089 HMMPfam hit to PF03928, DE Domain of unknown function (DUF336), score 2e-43 257310018090 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 257310018091 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 257310018092 acyl-activating enzyme (AAE) consensus motif; other site 257310018093 putative AMP binding site [chemical binding]; other site 257310018094 putative active site [active] 257310018095 putative CoA binding site [chemical binding]; other site 257310018096 HMMPfam hit to PF00501, DE AMP-binding protein, score 6.1e-105 257310018097 PS00455 AMP-binding domain signature. 257310018098 PS00226 Intermediate filaments signature. 257310018099 Signal peptide predicted for BB3729 by SignalP 2.0 HMM (Signal peptide probabilty 0.982) with cleavage site probability 0.688 between residues 44 and 45; signal peptide 257310018100 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 257310018101 NlpC/P60 family; Region: NLPC_P60; pfam00877 257310018102 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310018103 HMMPfam hit to PF00877, DE NLP/P60 family, score 1.7e-43 257310018104 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 257310018105 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 257310018106 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310018107 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 257310018108 substrate binding site [chemical binding]; other site 257310018109 dimerization interface [polypeptide binding]; other site 257310018110 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7e-39 257310018111 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.8e-10 257310018112 PS00044 Bacterial regulatory proteins, lysR family signature. 257310018113 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 257310018114 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 257310018115 tetrameric interface [polypeptide binding]; other site 257310018116 NAD binding site [chemical binding]; other site 257310018117 catalytic residues [active] 257310018118 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 7e-175 257310018119 PS00070 Aldehyde dehydrogenases cysteine active site. 257310018120 Signal peptide predicted for BB3733 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 24 and 25; signal peptide 257310018121 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310018122 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 257310018123 putative ligand binding site [chemical binding]; other site 257310018124 1 probable transmembrane helix predicted for BB3733 by TMHMM2.0 at aa 7-25 257310018125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310018126 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310018127 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310018128 dimerization interface [polypeptide binding]; other site 257310018129 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 9.5e-13 257310018130 PS00044 Bacterial regulatory proteins, lysR family signature. 257310018131 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2e-40 257310018132 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 257310018133 Predicted permeases [General function prediction only]; Region: COG0795 257310018134 HMMPfam hit to PF03739, DE Predicted permease YjgP/YjgQ family, score 1.4e-41 257310018135 5 probable transmembrane helices predicted for BB3735 by TMHMM2.0 at aa 15-37, 49-71, 103-125, 307-329 and 333-355 257310018136 multifunctional aminopeptidase A; Provisional; Region: PRK00913 257310018137 Signal peptide predicted for BB3736 by SignalP 2.0 HMM (Signal peptide probabilty 0.896) with cleavage site probability 0.523 between residues 32 and 33; signal peptide 257310018138 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 257310018139 interface (dimer of trimers) [polypeptide binding]; other site 257310018140 Substrate-binding/catalytic site; other site 257310018141 Zn-binding sites [ion binding]; other site 257310018142 HMMPfam hit to PF02789, DE Cytosol aminopeptidase family, N-terminal domain, score 1e-12 257310018143 HMMPfam hit to PF00883, DE Cytosol aminopeptidase family, catalytic domain, score 9.5e-174 257310018144 PS00631 Cytosol aminopeptidase signature. 257310018145 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 257310018146 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 257310018147 YccA-like proteins; Region: YccA_like; cd10433 257310018148 7 probable transmembrane helices predicted for BB3739 by TMHMM2.0 at aa 32-54, 59-81, 88-110, 120-139, 152-170, 174-193 and 206-228 257310018149 HMMPfam hit to PF01027, DE Uncharacterized protein family UPF0005, score 1.7e-26 257310018150 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310018151 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310018152 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7e-85 257310018153 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 257310018154 putative active site [active] 257310018155 Zn binding site [ion binding]; other site 257310018156 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 257310018157 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 257310018158 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310018159 catalytic residue [active] 257310018160 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 6.4e-26 257310018161 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310018162 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310018163 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310018164 dimerization interface [polypeptide binding]; other site 257310018165 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.8e-36 257310018166 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.3e-15 257310018167 PS00044 Bacterial regulatory proteins, lysR family signature. 257310018168 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 257310018169 Recombination protein O N terminal; Region: RecO_N; pfam11967 257310018170 Recombination protein O C terminal; Region: RecO_C; pfam02565 257310018171 HMMPfam hit to PF02565, DE Recombination protein O, score 5.4e-05 257310018172 GTPase Era; Reviewed; Region: era; PRK00089 257310018173 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 257310018174 G1 box; other site 257310018175 GTP/Mg2+ binding site [chemical binding]; other site 257310018176 Switch I region; other site 257310018177 G2 box; other site 257310018178 Switch II region; other site 257310018179 G3 box; other site 257310018180 G4 box; other site 257310018181 G5 box; other site 257310018182 KH domain; Region: KH_2; pfam07650 257310018183 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018184 ribonuclease III; Reviewed; Region: rnc; PRK00102 257310018185 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 257310018186 dimerization interface [polypeptide binding]; other site 257310018187 active site 257310018188 metal binding site [ion binding]; metal-binding site 257310018189 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 257310018190 dsRNA binding site [nucleotide binding]; other site 257310018191 HMMPfam hit to PF00035, DE Double-stranded RNA binding motif, score 1.8e-12 257310018192 HMMPfam hit to PF00636, DE RNase3 domain, score 2.5e-43 257310018193 PS00517 Ribonuclease III family signature. 257310018194 signal peptidase I; Provisional; Region: PRK10861 257310018195 Signal peptide predicted for BB3747 by SignalP 2.0 HMM (Signal peptide probabilty 0.977) with cleavage site probability 0.964 between residues 21 and 22; signal peptide 257310018196 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 257310018197 Catalytic site [active] 257310018198 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 257310018199 HMMPfam hit to PF00461, DE Signal peptidase I, score 3.3e-66 257310018200 PS00761 Signal peptidases I signature 3. 257310018201 PS00760 Signal peptidases I lysine active site. 257310018202 PS00501 Signal peptidases I serine active site. 257310018203 2 probable transmembrane helices predicted for BB3747 by TMHMM2.0 at aa 5-27 and 70-92 257310018204 GTP-binding protein LepA; Provisional; Region: PRK05433 257310018205 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 257310018206 G1 box; other site 257310018207 putative GEF interaction site [polypeptide binding]; other site 257310018208 GTP/Mg2+ binding site [chemical binding]; other site 257310018209 Switch I region; other site 257310018210 G2 box; other site 257310018211 G3 box; other site 257310018212 Switch II region; other site 257310018213 G4 box; other site 257310018214 G5 box; other site 257310018215 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 257310018216 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 257310018217 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 257310018218 HMMPfam hit to PF00679, DE Elongation factor G C-terminus, score 1.1e-36 257310018219 HMMPfam hit to PF03144, DE Elongation factor Tu domain 2, score 3.3e-13 257310018220 HMMPfam hit to PF00009, DE Elongation factor Tu GTP binding domain, score 1.7e-70 257310018221 PS00301 GTP-binding elongation factors signature. 257310018222 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018223 Signal peptide predicted for BB3749 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.952 between residues 34 and 35; signal peptide 257310018224 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 257310018225 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 257310018226 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 257310018227 protein binding site [polypeptide binding]; other site 257310018228 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 257310018229 HMMPfam hit to PF00595, DE PDZ domain (Also known as DHR or GLGF), score 0.0006 257310018230 HMMPfam hit to PF00595, DE PDZ domain (Also known as DHR or GLGF), score 4.7e-11 257310018231 HMMPfam hit to PF00089, DE Trypsin, score 2.1e-14 257310018232 PS00584 pfkB family of carbohydrate kinases signature 2. 257310018233 1 probable transmembrane helix predicted for BB3749 by TMHMM2.0 at aa 9-31 257310018234 Signal peptide predicted for BB3750 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.961 between residues 45 and 46; signal peptide 257310018235 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 257310018236 anti-sigma E factor; Provisional; Region: rseB; PRK09455 257310018237 1 probable transmembrane helix predicted for BB3750 by TMHMM2.0 at aa 23-40 257310018238 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 257310018239 1 probable transmembrane helix predicted for BB3751 by TMHMM2.0 at aa 92-114 257310018240 HMMPfam hit to PF03872, DE Anti sigma-E protein RseA, N-terminal domain, score 0.00046 257310018241 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 257310018242 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310018243 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 257310018244 DNA binding residues [nucleotide binding] 257310018245 HMMPfam hit to PF00776, , score 1.3e-25 257310018246 PS01063 Sigma-70 factors ECF subfamily signature. 257310018247 Signal peptide predicted for BB3753 by SignalP 2.0 HMM (Signal peptide probabilty 0.900) with cleavage site probability 0.329 between residues 42 and 43; signal peptide 257310018248 2 probable transmembrane helices predicted for BB3753 by TMHMM2.0 at aa 21-43 and 48-70 257310018249 PS00041 Bacterial regulatory proteins, araC family signature. 257310018250 Signal peptide predicted for BB3754 by SignalP 2.0 HMM (Signal peptide probabilty 0.610) with cleavage site probability 0.430 between residues 21 and 22; signal peptide 257310018251 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 257310018252 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 257310018253 dimer interface [polypeptide binding]; other site 257310018254 active site 257310018255 HMMPfam hit to PF02801, DE Beta-ketoacyl synthase, C-terminal domain, score 1.1e-56 257310018256 HMMPfam hit to PF00109, DE Beta-ketoacyl synthase, N-terminal domain, score 2.5e-86 257310018257 PS00606 Beta-ketoacyl synthases active site. 257310018258 acyl carrier protein; Provisional; Region: acpP; PRK00982 257310018259 PS00038 Myc-type, 'helix-loop-helix' dimerization domain signature. 257310018260 HMMPfam hit to PF00550, DE Phosphopantetheine attachment site, score 3.8e-22 257310018261 PS00012 Phosphopantetheine attachment site. 257310018262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310018263 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 257310018264 NAD(P) binding site [chemical binding]; other site 257310018265 active site 257310018266 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 7.5e-90 257310018267 PS00061 Short-chain dehydrogenases/reductases family signature. 257310018268 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 257310018269 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 257310018270 HMMPfam hit to PF00698, DE Acyl transferase domain, score 5.3e-63 257310018271 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 257310018272 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 257310018273 dimer interface [polypeptide binding]; other site 257310018274 active site 257310018275 CoA binding pocket [chemical binding]; other site 257310018276 PS00087 Copper/Zinc superoxide dismutase signature 1. 257310018277 putative phosphate acyltransferase; Provisional; Region: PRK05331 257310018278 HMMPfam hit to PF02504, DE Fatty acid synthesis protein, score 5.7e-133 257310018279 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 257310018280 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 257310018281 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 257310018282 active site 257310018283 dimer interface [polypeptide binding]; other site 257310018284 HMMPfam hit to PF02545, DE Maf-like protein, score 3.1e-43 257310018285 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 257310018286 putative SAM binding site [chemical binding]; other site 257310018287 homodimer interface [polypeptide binding]; other site 257310018288 HMMPfam hit to PF00590, DE Tetrapyrrole (Corrin/Porphyrin) Methylases, score 6.3e-05 257310018289 Signal peptide predicted for BB3764 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.407 between residues 22 and 23; signal peptide 257310018290 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 257310018291 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 257310018292 amidase catalytic site [active] 257310018293 Zn binding residues [ion binding]; other site 257310018294 substrate binding site [chemical binding]; other site 257310018295 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 257310018296 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310018297 HMMPfam hit to PF01510, DE N-acetylmuramoyl-L-alanine amidase, score 7.9e-38 257310018298 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 257310018299 6 probable transmembrane helices predicted for BB3765 by TMHMM2.0 at aa 31-48, 63-85, 98-115, 130-152, 165-184 and 194-211 257310018300 TMAO/DMSO reductase; Reviewed; Region: PRK05363 257310018301 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 257310018302 Moco binding site; other site 257310018303 metal coordination site [ion binding]; other site 257310018304 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 257310018305 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310018306 motif II; other site 257310018307 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 2.6e-30 257310018308 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 257310018309 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 257310018310 RNA binding surface [nucleotide binding]; other site 257310018311 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 257310018312 active site 257310018313 HMMPfam hit to PF00849, DE RNA pseudouridylate synthase, score 6.6e-47 257310018314 PS01129 Rlu family of pseudouridine synthase signature. 257310018315 HMMPfam hit to PF01479, DE S4 domain, score 1.1e-08 257310018316 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 257310018317 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 257310018318 homodimer interface [polypeptide binding]; other site 257310018319 oligonucleotide binding site [chemical binding]; other site 257310018320 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 4.4e-13 257310018321 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 257310018322 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 257310018323 HMMPfam hit to PF02275, DE Choloylglycine hydrolase, score 7.4e-30 257310018324 Signal peptide predicted for BB3771 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 25 and 26; signal peptide 257310018325 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 257310018326 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310018327 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 257310018328 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 257310018329 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 257310018330 substrate binding site [chemical binding]; other site 257310018331 active site 257310018332 catalytic residues [active] 257310018333 heterodimer interface [polypeptide binding]; other site 257310018334 HMMPfam hit to PF00290, DE Tryptophan synthase alpha chain, score 6.5e-86 257310018335 PS00167 Tryptophan synthase alpha chain signature. 257310018336 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 257310018337 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 257310018338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310018339 catalytic residue [active] 257310018340 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 1.2e-116 257310018341 PS00168 Tryptophan synthase beta chain pyridoxal-phosphate attachment site. 257310018342 acetylornithine deacetylase; Provisional; Region: PRK07522 257310018343 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 257310018344 metal binding site [ion binding]; metal-binding site 257310018345 putative dimer interface [polypeptide binding]; other site 257310018346 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 2.4e-61 257310018347 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 257310018348 HD domain; Region: HD_4; pfam13328 257310018349 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 257310018350 synthetase active site [active] 257310018351 NTP binding site [chemical binding]; other site 257310018352 metal binding site [ion binding]; metal-binding site 257310018353 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 257310018354 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 257310018355 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01842, DE ACT domain, score 4.5e-12 257310018356 HMMPfam hit to PF02824, DE TGS domain, score 3.5e-26 257310018357 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 257310018358 PS00142 Neutral zinc metallopeptidases, zinc-binding region signature. 257310018359 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 257310018360 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 257310018361 homotrimer interaction site [polypeptide binding]; other site 257310018362 putative active site [active] 257310018363 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 6.1e-25 257310018364 PS01094 Uncharacterized protein family UPF0076 signature. 257310018365 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 257310018366 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 257310018367 active site 257310018368 Ferredoxin [Energy production and conversion]; Region: COG1146 257310018369 4Fe-4S binding domain; Region: Fer4; pfam00037 257310018370 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 257310018371 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 2.6e-05 257310018372 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310018373 ferredoxin-NADP reductase; Provisional; Region: PRK10926 257310018374 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 257310018375 FAD binding pocket [chemical binding]; other site 257310018376 FAD binding motif [chemical binding]; other site 257310018377 phosphate binding motif [ion binding]; other site 257310018378 beta-alpha-beta structure motif; other site 257310018379 NAD binding pocket [chemical binding]; other site 257310018380 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 1.3e-05 257310018381 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 257310018382 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 257310018383 ferredoxin; Provisional; Region: PRK08764 257310018384 Putative Fe-S cluster; Region: FeS; cl17515 257310018385 4Fe-4S binding domain; Region: Fer4; cl02805 257310018386 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 1.5e-06 257310018387 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310018388 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.00068 257310018389 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310018390 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 257310018391 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 257310018392 minor groove reading motif; other site 257310018393 helix-hairpin-helix signature motif; other site 257310018394 substrate binding pocket [chemical binding]; other site 257310018395 active site 257310018396 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 257310018397 HMMPfam hit to PF00730, DE HhH-GPD superfamily base excision DNA repair protein, score 4.6e-72 257310018398 PS01155 Endonuclease III family signature. 257310018399 PS00764 Endonuclease III iron-sulfur binding region signature. 257310018400 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310018401 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310018402 Walker A/P-loop; other site 257310018403 ATP binding site [chemical binding]; other site 257310018404 Q-loop/lid; other site 257310018405 ABC transporter signature motif; other site 257310018406 Walker B; other site 257310018407 D-loop; other site 257310018408 H-loop/switch region; other site 257310018409 HMMPfam hit to PF00005, DE ABC transporter score 5e-43 257310018410 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018411 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310018412 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310018413 Walker A/P-loop; other site 257310018414 ATP binding site [chemical binding]; other site 257310018415 Q-loop/lid; other site 257310018416 ABC transporter signature motif; other site 257310018417 Walker B; other site 257310018418 D-loop; other site 257310018419 H-loop/switch region; other site 257310018420 HMMPfam hit to PF00005, DE ABC transporter score 8.3e-39 257310018421 PS00211 ABC transporters family signature. 257310018422 Signal peptide predicted for BB3788 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.994 between residues 24 and 25; signal peptide 257310018423 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310018424 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 257310018425 putative ligand binding site [chemical binding]; other site 257310018426 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310018427 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310018428 TM-ABC transporter signature motif; other site 257310018429 8 probable transmembrane helices predicted for BB3789 by TMHMM2.0 at aa 4-26, 33-55, 65-87, 100-122, 149-168, 198-220, 230-252 and 265-287 257310018430 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.2e-37 257310018431 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310018432 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310018433 TM-ABC transporter signature motif; other site 257310018434 8 probable transmembrane helices predicted for BB3790 by TMHMM2.0 at aa 5-27, 37-59, 72-94, 104-123, 152-174, 204-226, 239-261 and 285-307 257310018435 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 9.9e-08 257310018436 Signal peptide predicted for BB3791 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 28 and 29; signal peptide 257310018437 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 257310018438 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 257310018439 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310018440 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 257310018441 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 257310018442 homodimer interface [polypeptide binding]; other site 257310018443 substrate-cofactor binding pocket; other site 257310018444 catalytic residue [active] 257310018445 HMMPfam hit to PF01063, DE Aminotransferase class IV, score 1.7e-19 257310018446 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310018447 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310018448 Walker A/P-loop; other site 257310018449 ATP binding site [chemical binding]; other site 257310018450 Q-loop/lid; other site 257310018451 ABC transporter signature motif; other site 257310018452 Walker B; other site 257310018453 D-loop; other site 257310018454 H-loop/switch region; other site 257310018455 HMMPfam hit to PF00005, DE ABC transporter score 1e-38 257310018456 PS00211 ABC transporters family signature. 257310018457 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018458 Signal peptide predicted for BB3794 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.971 between residues 20 and 21; signal peptide 257310018459 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310018460 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310018461 TM-ABC transporter signature motif; other site 257310018462 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310018463 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310018464 Walker A/P-loop; other site 257310018465 ATP binding site [chemical binding]; other site 257310018466 Q-loop/lid; other site 257310018467 ABC transporter signature motif; other site 257310018468 Walker B; other site 257310018469 D-loop; other site 257310018470 H-loop/switch region; other site 257310018471 HMMPfam hit to PF00005, DE ABC transporter score 3.4e-56 257310018472 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018473 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 6.5e-11 257310018474 8 probable transmembrane helices predicted for BB3794 by TMHMM2.0 at aa 5-27, 40-62, 77-99, 106-125, 155-174, 201-223, 243-265 and 286-308 257310018475 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310018476 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310018477 TM-ABC transporter signature motif; other site 257310018478 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.3e-06 257310018479 9 probable transmembrane helices predicted for BB3795 by TMHMM2.0 at aa 13-38, 58-80, 87-109, 119-141, 150-172, 194-216, 237-259, 282-304 and 311-333 257310018480 Signal peptide predicted for BB3796 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.780 between residues 24 and 25; signal peptide 257310018481 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257310018482 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 257310018483 putative ligand binding site [chemical binding]; other site 257310018484 Signal peptide predicted for BB3797 by SignalP 2.0 HMM (Signal peptide probabilty 0.908) with cleavage site probability 0.395 between residues 29 and 30; signal peptide 257310018485 BioY family; Region: BioY; pfam02632 257310018486 HMMPfam hit to PF02632, DE BioY family, score 2.5e-24 257310018487 5 probable transmembrane helices predicted for BB3797 by TMHMM2.0 at aa 7-29, 49-71, 80-102, 117-139 and 151-173 257310018488 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310018489 Cobalt transport protein; Region: CbiQ; cl00463 257310018490 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02361, DE Cobalt transport protein, score 6.6e-13 257310018491 5 probable transmembrane helices predicted for BB3798 by TMHMM2.0 at aa 12-34, 39-61, 68-90, 94-116 and 129-148 257310018492 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 257310018493 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 257310018494 Walker A/P-loop; other site 257310018495 ATP binding site [chemical binding]; other site 257310018496 Q-loop/lid; other site 257310018497 ABC transporter signature motif; other site 257310018498 Walker B; other site 257310018499 D-loop; other site 257310018500 H-loop/switch region; other site 257310018501 HMMPfam hit to PF00005, DE ABC transporter score 1.9e-42 257310018502 PS00211 ABC transporters family signature. 257310018503 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018504 methionine sulfoxide reductase B; Provisional; Region: PRK00222 257310018505 SelR domain; Region: SelR; pfam01641 257310018506 HMMPfam hit to PF01641, DE SelR domain, score 1.2e-80 257310018507 Signal peptide predicted for BB3801 by SignalP 2.0 HMM (Signal peptide probabilty 0.874) with cleavage site probability 0.522 between residues 21 and 22; signal peptide 257310018508 intracellular septation protein A; Reviewed; Region: PRK00259 257310018509 5 probable transmembrane helices predicted for BB3801 by TMHMM2.0 at aa 20-41, 53-70, 80-102, 122-144 and 154-173 257310018510 BolA-like protein; Region: BolA; pfam01722 257310018511 HMMPfam hit to PF01722, DE BolA-like protein, score 5.4e-16 257310018512 Signal peptide predicted for BB3803 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 19 and 20; signal peptide 257310018513 SurA N-terminal domain; Region: SurA_N_3; cl07813 257310018514 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 257310018515 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 257310018516 HMMPfam hit to PF00639, DE PPIC-type PPIASE domain, score 3.3e-35 257310018517 PS01096 PpiC-type peptidyl-prolyl cis-trans isomerase signature. 257310018518 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 257310018519 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 257310018520 nucleotide binding pocket [chemical binding]; other site 257310018521 K-X-D-G motif; other site 257310018522 catalytic site [active] 257310018523 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 257310018524 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 257310018525 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 257310018526 Dimer interface [polypeptide binding]; other site 257310018527 BRCT sequence motif; other site 257310018528 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00533, DE BRCA1 C Terminus (BRCT) domain, score 1.4e-10 257310018529 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018530 HMMPfam hit to PF03119, DE NAD-dependent DNA ligase C4 zinc finger domain, score 3.6e-10 257310018531 HMMPfam hit to PF03120, DE NAD-dependent DNA ligase OB-fold domain, score 1.3e-52 257310018532 PS01056 NAD-dependent DNA ligase signature 2. 257310018533 HMMPfam hit to PF01653, DE NAD-dependent DNA ligase adenylation domain, score 3.6e-167 257310018534 PS01055 NAD-dependent DNA ligase signature 1. 257310018535 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 257310018536 1 probable transmembrane helix predicted for BB3805 by TMHMM2.0 at aa 4-26 257310018537 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 257310018538 AAA domain; Region: AAA_23; pfam13476 257310018539 Walker A/P-loop; other site 257310018540 ATP binding site [chemical binding]; other site 257310018541 Q-loop/lid; other site 257310018542 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 257310018543 ABC transporter signature motif; other site 257310018544 Walker B; other site 257310018545 D-loop; other site 257310018546 H-loop/switch region; other site 257310018547 PS00307 Legume lectins beta-chain signature. 257310018548 HMMPfam hit to PF02483, DE SMC family, C-terminal domain, score 1.2e-74 257310018549 HMMPfam hit to PF02463, DE RecF/RecN/SMC N terminal domain, score 1.1e-51 257310018550 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018551 lysophospholipid transporter LplT; Provisional; Region: PRK11195 257310018552 Signal peptide predicted for BB3807 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.962 between residues 18 and 19; signal peptide 257310018553 12 probable transmembrane helices predicted for BB3807 by TMHMM2.0 at aa 13-35, 45-62, 69-91, 95-117, 138-160, 180-202, 235-257, 272-291, 298-320, 325-347, 368-385 and 389-406 257310018554 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 257310018555 Fe-S cluster binding site [ion binding]; other site 257310018556 active site 257310018557 HMMPfam hit to PF03167, DE Uracil DNA glycosylase superfamily, score 6.4e-39 257310018558 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 257310018559 Glycoprotease family; Region: Peptidase_M22; pfam00814 257310018560 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 257310018561 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310018562 Coenzyme A binding pocket [chemical binding]; other site 257310018563 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 4.2e-14 257310018564 osmolarity response regulator; Provisional; Region: ompR; PRK09468 257310018565 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310018566 active site 257310018567 phosphorylation site [posttranslational modification] 257310018568 intermolecular recognition site; other site 257310018569 dimerization interface [polypeptide binding]; other site 257310018570 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310018571 DNA binding site [nucleotide binding] 257310018572 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 2e-45 257310018573 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 5.6e-29 257310018574 Signal peptide predicted for BB3811 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.542 between residues 49 and 50; signal peptide 257310018575 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310018576 dimerization interface [polypeptide binding]; other site 257310018577 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310018578 dimer interface [polypeptide binding]; other site 257310018579 phosphorylation site [posttranslational modification] 257310018580 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310018581 ATP binding site [chemical binding]; other site 257310018582 Mg2+ binding site [ion binding]; other site 257310018583 G-X-G motif; other site 257310018584 2 probable transmembrane helices predicted for BB3811 by TMHMM2.0 at aa 29-51 and 175-197 257310018585 HMMPfam hit to PF00672, DE HAMP domain, score 3.6e-14 257310018586 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 1.3e-07 257310018587 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 8.3e-31 257310018588 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 257310018589 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 257310018590 dimer interface [polypeptide binding]; other site 257310018591 decamer (pentamer of dimers) interface [polypeptide binding]; other site 257310018592 catalytic triad [active] 257310018593 peroxidatic and resolving cysteines [active] 257310018594 HMMPfam hit to PF00578, DE AhpC/TSA family, score 7.1e-37 257310018595 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 257310018596 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 257310018597 Helix-turn-helix domain; Region: HTH_18; pfam12833 257310018598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310018599 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 2.9e-06 257310018600 PS00041 Bacterial regulatory proteins, araC family signature. 257310018601 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 25 257310018602 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310018603 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 257310018604 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0046 257310018605 12 probable transmembrane helices predicted for BB3815 by TMHMM2.0 at aa 98-117, 122-141, 154-173, 177-199, 206-228, 238-260, 281-303, 323-342, 349-371, 376-398, 411-433 and 438-460 257310018606 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 257310018607 homotrimer interaction site [polypeptide binding]; other site 257310018608 zinc binding site [ion binding]; other site 257310018609 CDP-binding sites; other site 257310018610 HMMPfam hit to PF02542, DE YgbB family, score 1.1e-74 257310018611 Signal peptide predicted for BB3817 by SignalP 2.0 HMM (Signal peptide probabilty 0.612) with cleavage site probability 0.529 between residues 24 and 25; signal peptide 257310018612 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 257310018613 substrate binding site; other site 257310018614 dimer interface; other site 257310018615 HMMPfam hit to PF01128, DE Uncharacterized protein family UPF0007, score 5.6e-57 257310018616 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 257310018617 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 257310018618 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 257310018619 ATP binding site [chemical binding]; other site 257310018620 putative Mg++ binding site [ion binding]; other site 257310018621 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 257310018622 nucleotide binding region [chemical binding]; other site 257310018623 ATP-binding site [chemical binding]; other site 257310018624 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 257310018625 HMMPfam hit to PF00270, DE DEAD/DEAH box helicase, score 2.9e-36 257310018626 PS00017 ATP/GTP-binding site motif A (P-loop). 257310018627 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 2.7e-19 257310018628 HMMPfam hit to PF03461, DE TRCF domain, score 3.4e-37 257310018629 phosphoserine phosphatase SerB; Region: serB; TIGR00338 257310018630 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310018631 motif II; other site 257310018632 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 3.3e-24 257310018633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310018634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310018635 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 257310018636 putative dimerization interface [polypeptide binding]; other site 257310018637 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7e-50 257310018638 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.2e-24 257310018639 PS00044 Bacterial regulatory proteins, lysR family signature. 257310018640 Signal peptide predicted for BB3821 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.971 between residues 25 and 26; signal peptide 257310018641 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310018642 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1e-116 257310018643 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 257310018644 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310018645 PYR/PP interface [polypeptide binding]; other site 257310018646 dimer interface [polypeptide binding]; other site 257310018647 TPP binding site [chemical binding]; other site 257310018648 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310018649 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 257310018650 TPP-binding site [chemical binding]; other site 257310018651 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 1.9e-15 257310018652 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 4.7e-19 257310018653 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 1.4e-29 257310018654 PS00187 Thiamine pyrophosphate enzymes signature. 257310018655 Signal peptide predicted for BB3823 by SignalP 2.0 HMM (Signal peptide probabilty 0.924) with cleavage site probability 0.689 between residues 32 and 33; signal peptide 257310018656 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 257310018657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310018658 NAD(P) binding site [chemical binding]; other site 257310018659 active site 257310018660 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 3.5e-75 257310018661 PS00061 Short-chain dehydrogenases/reductases family signature. 257310018662 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310018663 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 257310018664 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 257310018665 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 1.9e-10 257310018666 Signal peptide predicted for BB3825 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 37 and 38; signal peptide 257310018667 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 257310018668 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310018669 N-terminal plug; other site 257310018670 ligand-binding site [chemical binding]; other site 257310018671 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 1.5e-22 257310018672 Signal peptide predicted for BB3826 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.962 between residues 30 and 31; signal peptide 257310018673 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 257310018674 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310018675 N-terminal plug; other site 257310018676 ligand-binding site [chemical binding]; other site 257310018677 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 1.1e-23 257310018678 Signal peptide predicted for BB3827 by SignalP 2.0 HMM (Signal peptide probabilty 0.969) with cleavage site probability 0.300 between residues 18 and 19; signal peptide 257310018679 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 257310018680 3 probable transmembrane helices predicted for BB3827 by TMHMM2.0 at aa 4-23, 44-64 and 79-101 257310018681 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 257310018682 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257310018683 14 probable transmembrane helices predicted for BB3828 by TMHMM2.0 at aa 10-32, 39-56, 76-98, 111-128, 132-152, 165-187, 207-229, 242-264, 279-296, 303-323, 338-360, 381-403, 413-435 and 469-491 257310018684 HMMPfam hit to PF00361, DE NADH-Ubiquinone/plastoquinone (complex I), various chains, score 1.5e-78 257310018685 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 257310018686 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257310018687 14 probable transmembrane helices predicted for BB3829 by TMHMM2.0 at aa 10-32, 39-61, 93-115, 122-139, 143-165, 172-194, 214-236, 249-271, 281-303, 310-332, 337-359, 380-402, 412-434 and 455-477 257310018688 HMMPfam hit to PF00361, DE NADH-Ubiquinone/plastoquinone (complex I), various chains, score 2.3e-94 257310018689 Signal peptide predicted for BB3830 by SignalP 2.0 HMM (Signal peptide probabilty 0.937) with cleavage site probability 0.646 between residues 22 and 23; signal peptide 257310018690 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 257310018691 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 257310018692 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 257310018693 16 probable transmembrane helices predicted for BB3830 by TMHMM2.0 at aa 10-32, 39-61, 93-115, 122-139, 143-165, 186-208, 223-240, 261-280, 290-312, 319-341, 345-367, 388-407, 427-449, 484-506, 548-567 and 646-668 257310018694 HMMPfam hit to PF00361, DE NADH-Ubiquinone/plastoquinone (complex I), various chains, score 5.6e-101 257310018695 HMMPfam hit to PF00662, DE NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus, score 3.4e-24 257310018696 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 257310018697 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00420, DE NADH-ubiquinone/plastoquinone oxidoreductase chain 4L, score 4.3e-34 257310018698 3 probable transmembrane helices predicted for BB3831 by TMHMM2.0 at aa 4-25, 30-52 and 62-84 257310018699 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 257310018700 Signal peptide predicted for BB3832 by SignalP 2.0 HMM (Signal peptide probabilty 0.881) with cleavage site probability 0.278 between residues 24 and 25; signal peptide 257310018701 HMMPfam hit to PF00499, DE NADH-ubiquinone/plastoquinone oxidoreductase chain 6, score 1.6e-17 257310018702 5 probable transmembrane helices predicted for BB3832 by TMHMM2.0 at aa 5-24, 31-50, 55-77, 90-112 and 142-164 257310018703 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 257310018704 4Fe-4S binding domain; Region: Fer4; pfam00037 257310018705 4Fe-4S binding domain; Region: Fer4; cl02805 257310018706 PS00028 Zinc finger, C2H2 type, domain. 257310018707 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 4.3e-06 257310018708 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310018709 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.00022 257310018710 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310018711 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 257310018712 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 257310018713 8 probable transmembrane helices predicted for BB3834 by TMHMM2.0 at aa 20-42, 92-111, 126-148, 169-191, 206-225, 257-279, 294-316 and 329-351 257310018714 HMMPfam hit to PF00146, DE NADH dehydrogenase, score 8e-151 257310018715 PS00668 Respiratory-chain NADH dehydrogenase subunit 1 signature 2. 257310018716 NADH dehydrogenase subunit G; Validated; Region: PRK09129 257310018717 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310018718 catalytic loop [active] 257310018719 iron binding site [ion binding]; other site 257310018720 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 257310018721 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 257310018722 HMMPfam hit to PF00384, DE Molybdopterin oxidoreductase, score 3.4e-07 257310018723 PS00066 Hydroxymethylglutaryl-coenzyme A reductases signature 1. 257310018724 PS00643 Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 3. 257310018725 PS00642 Respiratory-chain NADH dehydrogenase 75 Kd subunit signature 2. 257310018726 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 3.9e-10 257310018727 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 257310018728 SLBB domain; Region: SLBB; pfam10531 257310018729 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 257310018730 PS00645 Respiratory-chain NADH dehydrogenase 51 Kd subunit signature 2. 257310018731 HMMPfam hit to PF01512, DE Respiratory-chain NADH dehydrogenase 51 Kd subunit, score 9.7e-142 257310018732 NADH dehydrogenase subunit E; Validated; Region: PRK07539 257310018733 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 257310018734 putative dimer interface [polypeptide binding]; other site 257310018735 [2Fe-2S] cluster binding site [ion binding]; other site 257310018736 HMMPfam hit to PF01257, DE Respiratory-chain NADH dehydrogenase 24 Kd subunit, score 5.4e-51 257310018737 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 257310018738 NADH dehydrogenase subunit D; Validated; Region: PRK06075 257310018739 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00346, DE Respiratory-chain NADH dehydrogenase, 49 Kd subunit, score 5.7e-156 257310018740 PS00535 Respiratory chain NADH dehydrogenase 49 Kd subunit signature. 257310018741 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 257310018742 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 257310018743 HMMPfam hit to PF00329, DE Respiratory-chain NADH dehydrogenase, 30 Kd subunit, score 5.2e-38 257310018744 NADH dehydrogenase subunit B; Validated; Region: PRK06411 257310018745 HMMPfam hit to PF01058, DE NADH ubiquinone oxidoreductase, 20 Kd subunit, score 1.3e-60 257310018746 PS01150 Respiratory-chain NADH dehydrogenase 20 Kd subunit signature. 257310018747 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 257310018748 Signal peptide predicted for BB3841 by SignalP 2.0 HMM (Signal peptide probabilty 0.970) with cleavage site probability 0.396 between residues 25 and 26; signal peptide 257310018749 HMMPfam hit to PF00507, DE NADH-ubiquinone/plastoquinone oxidoreductase, chain 3, score 6.8e-47 257310018750 3 probable transmembrane helices predicted for BB3841 by TMHMM2.0 at aa 10-32, 61-83 and 87-109 257310018751 Signal peptide predicted for BB3842 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 20 and 21; signal peptide 257310018752 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 257310018753 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 257310018754 trimer interface [polypeptide binding]; other site 257310018755 eyelet of channel; other site 257310018756 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00267, DE Gram-negative porin, score 4.5e-05 257310018757 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310018758 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310018759 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310018760 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 1e-13 257310018761 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 257310018762 CoenzymeA binding site [chemical binding]; other site 257310018763 subunit interaction site [polypeptide binding]; other site 257310018764 PHB binding site; other site 257310018765 Signal peptide predicted for BB3845 by SignalP 2.0 HMM (Signal peptide probabilty 0.916) with cleavage site probability 0.715 between residues 20 and 21; signal peptide 257310018766 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 257310018767 active site 257310018768 HMMPfam hit to PF01569, DE PAP2 superfamily, score 4.2e-18 257310018769 7 probable transmembrane helices predicted for BB3846 by TMHMM2.0 at aa 25-47, 60-79, 94-116, 137-159, 179-201, 213-235 and 239-261 257310018770 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 257310018771 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 257310018772 active site 257310018773 metal binding site [ion binding]; metal-binding site 257310018774 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 1.4e-22 257310018775 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 257310018776 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 257310018777 HMMPfam hit to PF00781, DE Diacylglycerol kinase catalytic domain (presumed), score 0.00021 257310018778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310018779 Signal peptide predicted for BB3849 by SignalP 2.0 HMM (Signal peptide probabilty 0.941) with cleavage site probability 0.836 between residues 21 and 22; signal peptide 257310018780 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310018781 LysR substrate binding domain; Region: LysR_substrate; pfam03466 257310018782 dimerization interface [polypeptide binding]; other site 257310018783 This hit extended beyond the end of the feature by 1 aa and was clipped.; PS00294 Prenyl group binding site (CAAX box). 257310018784 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.3e-30 257310018785 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.6e-17 257310018786 PS00044 Bacterial regulatory proteins, lysR family signature. 257310018787 Signal peptide predicted for BB3850 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.985 between residues 35 and 36; signal peptide 257310018788 BCCT family transporter; Region: BCCT; cl00569 257310018789 HMMPfam hit to PF02028, DE BCCT family transporter score 6.3e-218 257310018790 12 probable transmembrane helices predicted for BB3850 by TMHMM2.0 at aa 13-35, 50-69, 90-112, 146-168, 189-211, 226-248, 261-283, 310-332, 345-364, 399-421, 445-467 and 471-490 257310018791 PS01303 BCCT family of transporters signature. 257310018792 Predicted transcriptional regulators [Transcription]; Region: COG1733 257310018793 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 257310018794 HMMPfam hit to PF01638, DE Transcriptional regulator, score 9.6e-19 257310018795 Signal peptide predicted for BB3852 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.438 between residues 19 and 20; signal peptide 257310018796 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 257310018797 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257310018798 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310018799 1 probable transmembrane helix predicted for BB3852 by TMHMM2.0 at aa 7-26 257310018800 HMMPfam hit to PF00529, DE hemolysin D, score 1.6e-12 257310018801 multidrug efflux protein; Reviewed; Region: PRK09579 257310018802 Signal peptide predicted for BB3853 by SignalP 2.0 HMM (Signal peptide probabilty 0.857) with cleavage site probability 0.695 between residues 30 and 31; signal peptide 257310018803 HMMPfam hit to PF00873, DE AcrB/AcrD/AcrF family, score 0 257310018804 10 probable transmembrane helices predicted for BB3853 by TMHMM2.0 at aa 7-29, 338-360, 373-395, 433-455, 462-484, 523-545, 844-863, 873-895, 944-966 and 981-1003 257310018805 Signal peptide predicted for BB3854 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.755 between residues 32 and 33; signal peptide 257310018806 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 257310018807 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310018808 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 7.4e-30 257310018809 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 2.6e-33 257310018810 Predicted transcriptional regulator [Transcription]; Region: COG2345 257310018811 Transcriptional regulator PadR-like family; Region: PadR; cl17335 257310018812 Signal peptide predicted for BB3856 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.996 between residues 35 and 36; signal peptide 257310018813 azurin; Region: azurin; TIGR02695 257310018814 HMMPfam hit to PF00127, DE Copper binding proteins, plastocyanin/azurin family, score 1.9e-73 257310018815 PS00196 Type-1 copper (blue) proteins signature. 257310018816 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310018817 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 257310018818 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 257310018819 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 257310018820 HMMPfam hit to PF01968, DE Hydantoinase/oxoprolinase, score 4.4e-139 257310018821 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 257310018822 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 257310018823 HMMPfam hit to PF02538, DE Hydantoinase B/oxoprolinase, score 2.4e-49 257310018824 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310018825 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 257310018826 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310018827 Signal peptide predicted for BB3861 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.879 between residues 27 and 28; signal peptide 257310018828 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310018829 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.4e-74 257310018830 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 257310018831 active site residue [active] 257310018832 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 257310018833 active site residue [active] 257310018834 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 257310018835 active site residue [active] 257310018836 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 257310018837 active site residue [active] 257310018838 HMMPfam hit to PF00581, DE Rhodanese-like domain, score 1.3e-07 257310018839 Signal peptide predicted for BB3863 by SignalP 2.0 HMM (Signal peptide probabilty 0.713) with cleavage site probability 0.708 between residues 35 and 36; signal peptide 257310018840 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310018841 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 5e-71 257310018842 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 257310018843 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 257310018844 active site 257310018845 Zn binding site [ion binding]; other site 257310018846 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 257310018847 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 257310018848 homodimer interface [polypeptide binding]; other site 257310018849 substrate-cofactor binding pocket; other site 257310018850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310018851 catalytic residue [active] 257310018852 HMMPfam hit to PF01053, DE Cys/Met metabolism PLP-dependent enzyme, score 2.5e-132 257310018853 PS00868 Cys/Met metabolism enzymes pyridoxal-phosphate attachment site. 257310018854 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 257310018855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310018856 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 257310018857 putative dimerization interface [polypeptide binding]; other site 257310018858 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.3e-21 257310018859 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7.4e-25 257310018860 short chain dehydrogenase; Provisional; Region: PRK08339 257310018861 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 257310018862 putative NAD(P) binding site [chemical binding]; other site 257310018863 putative active site [active] 257310018864 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2e-26 257310018865 Signal peptide predicted for BB3868 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.996 between residues 27 and 28; signal peptide 257310018866 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310018867 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.4e-107 257310018868 1 probable transmembrane helix predicted for BB3868 by TMHMM2.0 at aa 5-27 257310018869 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 257310018870 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 257310018871 active sites [active] 257310018872 tetramer interface [polypeptide binding]; other site 257310018873 HMMPfam hit to PF00206, DE Lyase, score 7e-14 257310018874 PS00215 Mitochondrial energy transfer proteins signature. 257310018875 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 257310018876 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 1.6e-55 257310018877 Signal peptide predicted for BB3871 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 27 and 28; signal peptide 257310018878 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310018879 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.4e-93 257310018880 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310018881 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 257310018882 dimer interface [polypeptide binding]; other site 257310018883 Methylaspartate ammonia-lyase C-terminus; Region: MAAL_C; pfam07476 257310018884 active site 257310018885 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310018886 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310018887 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310018888 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 1.2e-09 257310018889 BCCT family transporter; Region: BCCT; cl00569 257310018890 HMMPfam hit to PF02028, DE BCCT family transporter score 5.4e-160 257310018891 12 probable transmembrane helices predicted for BB3874 by TMHMM2.0 at aa 73-95, 110-132, 153-175, 204-226, 254-276, 291-313, 325-347, 376-398, 411-433, 461-483, 513-535 and 539-561 257310018892 Signal peptide predicted for BB3875 by SignalP 2.0 HMM (Signal peptide probabilty 0.887) with cleavage site probability 0.417 between residues 47 and 48; signal peptide 257310018893 Preprotein translocase SecG subunit; Region: SecG; cl09123 257310018894 HMMPfam hit to PF03840, DE Preprotein translocase SecG subunit, score 1.2e-27 257310018895 3 probable transmembrane helices predicted for BB3875 by TMHMM2.0 at aa 7-24, 34-56 and 61-78 257310018896 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 257310018897 triosephosphate isomerase; Provisional; Region: PRK14567 257310018898 substrate binding site [chemical binding]; other site 257310018899 dimer interface [polypeptide binding]; other site 257310018900 catalytic triad [active] 257310018901 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00121, DE Triosephosphate isomerase, score 4.4e-117 257310018902 PS00171 Triosephosphate isomerase active site. 257310018903 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 257310018904 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 257310018905 NAD(P) binding site [chemical binding]; other site 257310018906 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 4.1e-74 257310018907 PIN domain; Region: PIN_3; pfam13470 257310018908 threonine dehydratase; Provisional; Region: PRK07334 257310018909 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 257310018910 tetramer interface [polypeptide binding]; other site 257310018911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310018912 catalytic residue [active] 257310018913 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 257310018914 HMMPfam hit to PF01842, DE ACT domain, score 0.00047 257310018915 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 1.2e-69 257310018916 Signal peptide predicted for BB3880 by SignalP 2.0 HMM (Signal peptide probabilty 0.990) with cleavage site probability 0.311 between residues 28 and 29; signal peptide 257310018917 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310018918 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 257310018919 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 257310018920 RNase E interface [polypeptide binding]; other site 257310018921 trimer interface [polypeptide binding]; other site 257310018922 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 257310018923 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 257310018924 RNase E interface [polypeptide binding]; other site 257310018925 trimer interface [polypeptide binding]; other site 257310018926 active site 257310018927 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 257310018928 putative nucleic acid binding region [nucleotide binding]; other site 257310018929 G-X-X-G motif; other site 257310018930 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 257310018931 RNA binding site [nucleotide binding]; other site 257310018932 domain interface; other site 257310018933 HMMPfam hit to PF00575, DE S1 RNA binding domain, score 2.2e-20 257310018934 HMMPfam hit to PF00013, DE KH domain, score 2.4e-10 257310018935 HMMPfam hit to PF03725, DE 3' exoribonuclease family, domain 2, score 3.7e-19 257310018936 HMMPfam hit to PF01138, DE 3' exoribonuclease family, domain 1, score 1.6e-52 257310018937 HMMPfam hit to PF03726, DE Polyribonucleotide nucleotidyltransferase, RNA binding domain, score 8.5e-21 257310018938 HMMPfam hit to PF03725, DE 3' exoribonuclease family, domain 2, score 2.5e-16 257310018939 HMMPfam hit to PF01138, DE 3' exoribonuclease family, domain 1, score 1.1e-34 257310018940 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 257310018941 16S/18S rRNA binding site [nucleotide binding]; other site 257310018942 S13e-L30e interaction site [polypeptide binding]; other site 257310018943 25S rRNA binding site [nucleotide binding]; other site 257310018944 HMMPfam hit to PF00312, DE Ribosomal protein S15, score 6.9e-41 257310018945 PS00362 Ribosomal protein S15 signature. 257310018946 Signal peptide predicted for BB3883 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.540 between residues 28 and 29; signal peptide 257310018947 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310018948 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 257310018949 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 257310018950 6 probable transmembrane helices predicted for BB3884 by TMHMM2.0 at aa 17-39, 105-122, 135-157, 167-189, 194-216 and 221-243 257310018951 HMMPfam hit to PF01066, DE CDP-alcohol phosphatidyltransferase, score 8.1e-14 257310018952 PS00379 CDP-alcohol phosphatidyltransferases signature. 257310018953 ketol-acid reductoisomerase; Provisional; Region: PRK05479 257310018954 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 257310018955 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 257310018956 HMMPfam hit to PF01450, DE Acetohydroxy acid isomeroreductase, catalytic domain, score 8.3e-79 257310018957 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 257310018958 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 257310018959 putative valine binding site [chemical binding]; other site 257310018960 dimer interface [polypeptide binding]; other site 257310018961 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 257310018962 HMMPfam hit to PF01842, DE ACT domain, score 1.6e-16 257310018963 PS00430 TonB-dependent receptor proteins signature 1. 257310018964 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 257310018965 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310018966 PYR/PP interface [polypeptide binding]; other site 257310018967 dimer interface [polypeptide binding]; other site 257310018968 TPP binding site [chemical binding]; other site 257310018969 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310018970 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 257310018971 TPP-binding site [chemical binding]; other site 257310018972 dimer interface [polypeptide binding]; other site 257310018973 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 4.9e-76 257310018974 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 1.5e-59 257310018975 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 1.9e-90 257310018976 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 257310018977 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 257310018978 10 probable transmembrane helices predicted for BB3888 by TMHMM2.0 at aa 12-34, 76-98, 111-130, 145-167, 404-423, 428-447, 454-473, 478-495, 502-524 and 534-551 257310018979 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310018980 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310018981 putative substrate translocation pore; other site 257310018982 12 probable transmembrane helices predicted for BB3889 by TMHMM2.0 at aa 7-28, 43-65, 77-99, 103-125, 130-152, 162-181, 210-232, 247-269, 276-298, 308-330, 342-364 and 379-401 257310018983 hypothetical protein; Validated; Region: PRK02101 257310018984 HMMPfam hit to PF03883, DE Protein of unknown function (DUF328), score 3.5e-129 257310018985 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 257310018986 Signal peptide predicted for BB3891 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.972 between residues 25 and 26; signal peptide 257310018987 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 257310018988 NAD binding site [chemical binding]; other site 257310018989 homotetramer interface [polypeptide binding]; other site 257310018990 homodimer interface [polypeptide binding]; other site 257310018991 substrate binding site [chemical binding]; other site 257310018992 active site 257310018993 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.6e-76 257310018994 PS00061 Short-chain dehydrogenases/reductases family signature. 257310018995 Signal peptide predicted for BB3892 by SignalP 2.0 HMM (Signal peptide probabilty 0.762) with cleavage site probability 0.257 between residues 20 and 21; signal peptide 257310018996 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 257310018997 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 257310018998 HMMPfam hit to PF00999, DE Sodium/hydrogen exchanger family, score 2.9e-07 257310018999 10 probable transmembrane helices predicted for BB3892 by TMHMM2.0 at aa 21-43, 53-70, 82-104, 109-131, 144-166, 176-198, 210-232, 283-305, 317-335 and 350-369 257310019000 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310019001 PS00626 Regulator of chromosome condensation (RCC1) signature 2. 257310019002 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 257310019003 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257310019004 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 257310019005 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 257310019006 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 257310019007 IucA / IucC family; Region: IucA_IucC; pfam04183 257310019008 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 257310019009 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 257310019010 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 257310019011 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 257310019012 [2Fe-2S] cluster binding site [ion binding]; other site 257310019013 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 257310019014 alpha subunit interface [polypeptide binding]; other site 257310019015 active site 257310019016 substrate binding site [chemical binding]; other site 257310019017 Fe binding site [ion binding]; other site 257310019018 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 4.6e-18 257310019019 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257310019020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310019021 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.024 257310019022 PS00041 Bacterial regulatory proteins, araC family signature. 257310019023 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.47 257310019024 Signal peptide predicted for BB3899 by SignalP 2.0 HMM (Signal peptide probabilty 0.969) with cleavage site probability 0.448 between residues 26 and 27; signal peptide 257310019025 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310019026 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 257310019027 putative substrate translocation pore; other site 257310019028 12 probable transmembrane helices predicted for BB3899 by TMHMM2.0 at aa 12-34, 49-71, 78-100, 104-126, 139-161, 165-187, 217-239, 254-276, 283-305, 309-331, 338-360 and 375-397 257310019029 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310019030 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 257310019031 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310019032 N-terminal plug; other site 257310019033 ligand-binding site [chemical binding]; other site 257310019034 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 6.8e-20 257310019035 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 257310019036 HMMPfam hit to PF01914, DE MarC family integral membrane protein, score 1.2e-35 257310019037 5 probable transmembrane helices predicted for BB3901 by TMHMM2.0 at aa 7-29, 49-71, 116-138, 148-170 and 191-208 257310019038 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310019039 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310019040 metal binding site [ion binding]; metal-binding site 257310019041 active site 257310019042 I-site; other site 257310019043 HMMPfam hit to PF00990, DE GGDEF domain, score 4.8e-45 257310019044 Signal peptide predicted for BB3906 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.982 between residues 23 and 24; signal peptide 257310019045 2 probable transmembrane helices predicted for BB3906 by TMHMM2.0 at aa 4-23 and 28-50 257310019046 seryl-tRNA synthetase; Provisional; Region: PRK05431 257310019047 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 257310019048 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 257310019049 dimer interface [polypeptide binding]; other site 257310019050 active site 257310019051 motif 1; other site 257310019052 motif 2; other site 257310019053 motif 3; other site 257310019054 HMMPfam hit to PF00587, DE tRNA synthetase class II core domain (G, H, P, S and T), score 5.5e-46 257310019055 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310019056 HMMPfam hit to PF02403, DE Seryl-tRNA synthetase N-terminal domain, score 2.8e-06 257310019057 Signal peptide predicted for BB3909 by SignalP 2.0 HMM (Signal peptide probabilty 0.800) with cleavage site probability 0.792 between residues 20 and 21; signal peptide 257310019058 recombination factor protein RarA; Reviewed; Region: PRK13342 257310019059 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310019060 Walker A motif; other site 257310019061 ATP binding site [chemical binding]; other site 257310019062 Walker B motif; other site 257310019063 arginine finger; other site 257310019064 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 257310019065 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 4.1e-09 257310019066 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019067 Signal peptide predicted for BB3910 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.981 between residues 26 and 27; signal peptide 257310019068 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 257310019069 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 257310019070 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03548, DE Outer membrane lipoprotein carrier protein LolA, score 1.1e-42 257310019071 Signal peptide predicted for BB3911 by SignalP 2.0 HMM (Signal peptide probabilty 0.682) with cleavage site probability 0.539 between residues 50 and 51; signal peptide 257310019072 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 257310019073 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 257310019074 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 257310019075 HMMPfam hit to PF01580, DE FtsK/SpoIIIE family, score 1.2e-84 257310019076 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019077 3 probable transmembrane helices predicted for BB3911 by TMHMM2.0 at aa 33-55, 75-97 and 182-204 257310019078 thioredoxin reductase; Provisional; Region: PRK10262 257310019079 Signal peptide predicted for BB3912 by SignalP 2.0 HMM (Signal peptide probabilty 0.966) with cleavage site probability 0.906 between residues 25 and 26; signal peptide 257310019080 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257310019081 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310019082 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 2.1e-71 257310019083 PS00573 Pyridine nucleotide-disulphide oxidoreductases class-II active site. 257310019084 Smr domain; Region: Smr; pfam01713 257310019085 HMMPfam hit to PF01713, DE Smr domain, score 7.5e-30 257310019086 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 257310019087 HMMPfam hit to PF00893, DE Integral membrane protein DUF7, score 1e-45 257310019088 3 probable transmembrane helices predicted for BB3914 by TMHMM2.0 at aa 27-49, 56-78 and 83-105 257310019089 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 257310019090 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 257310019091 13 probable transmembrane helices predicted for BB3915 by TMHMM2.0 at aa 15-37, 44-66, 86-108, 113-135, 158-180, 193-215, 219-238, 375-394, 409-431, 545-563, 573-595, 602-624 and 644-666 257310019092 HMMPfam hit to PF00474, DE Sodium:solute symporter family, score 2.2e-09 257310019093 PS00018 EF-hand calcium-binding domain. 257310019094 putative solute:sodium symporter small subunit; Region: Na_symport_sm; TIGR03647 257310019095 2 probable transmembrane helices predicted for BB3916 by TMHMM2.0 at aa 21-40 and 55-77 257310019096 Signal peptide predicted for BB3917 by SignalP 2.0 HMM (Signal peptide probabilty 0.857) with cleavage site probability 0.368 between residues 19 and 20; signal peptide 257310019097 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 257310019098 10 probable transmembrane helices predicted for BB3917 by TMHMM2.0 at aa 5-27, 66-85, 134-156, 177-199, 282-304, 313-335, 410-432, 452-474, 519-541 and 562-584 257310019099 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03814, DE Potassium-transporting ATPase A subunit, score 0 257310019100 Signal peptide predicted for BB3918 by SignalP 2.0 HMM (Signal peptide probabilty 0.715) with cleavage site probability 0.686 between residues 23 and 24; signal peptide 257310019101 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 257310019102 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 257310019103 7 probable transmembrane helices predicted for BB3918 by TMHMM2.0 at aa 57-79, 84-106, 256-278, 293-315, 616-638, 653-675 and 694-716 257310019104 HMMPfam hit to PF00122, DE E1-E2 ATPase, score 4.2e-49 257310019105 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 2.1e-29 257310019106 PS00154 E1-E2 ATPases phosphorylation site. 257310019107 PS00018 EF-hand calcium-binding domain. 257310019108 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 257310019109 HMMPfam hit to PF02669, DE K+-transporting ATPase, c chain, score 3.1e-90 257310019110 1 probable transmembrane helix predicted for BB3919 by TMHMM2.0 at aa 13-35 257310019111 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 257310019112 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 257310019113 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 257310019114 Ligand Binding Site [chemical binding]; other site 257310019115 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 257310019116 GAF domain; Region: GAF_3; pfam13492 257310019117 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310019118 dimer interface [polypeptide binding]; other site 257310019119 phosphorylation site [posttranslational modification] 257310019120 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310019121 ATP binding site [chemical binding]; other site 257310019122 Mg2+ binding site [ion binding]; other site 257310019123 G-X-G motif; other site 257310019124 HMMPfam hit to PF02702, DE Osmosensitive K+ channel His kinase sensor domain, score 2.9e-143 257310019125 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019126 3 probable transmembrane helices predicted for BB3920 by TMHMM2.0 at aa 460-479, 486-508 and 513-535 257310019127 PS00070 Aldehyde dehydrogenases cysteine active site. 257310019128 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 1.5e-16 257310019129 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 7.3e-34 257310019130 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 257310019131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310019132 active site 257310019133 phosphorylation site [posttranslational modification] 257310019134 intermolecular recognition site; other site 257310019135 dimerization interface [polypeptide binding]; other site 257310019136 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310019137 DNA binding site [nucleotide binding] 257310019138 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 6.8e-37 257310019139 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 3.9e-20 257310019140 Signal peptide predicted for BB3922 by SignalP 2.0 HMM (Signal peptide probabilty 0.940) with cleavage site probability 0.176 between residues 35 and 36; signal peptide 257310019141 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 257310019142 O-Antigen ligase; Region: Wzy_C; pfam04932 257310019143 11 probable transmembrane helices predicted for BB3922 by TMHMM2.0 at aa 4-23, 28-45, 60-82, 89-111, 116-138, 151-173, 193-215, 227-249, 332-354, 366-388 and 393-410 257310019144 PS00962 Ribosomal protein S2 signature 1. 257310019145 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 257310019146 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 257310019147 isocitrate dehydrogenase; Validated; Region: PRK07362 257310019148 isocitrate dehydrogenase; Reviewed; Region: PRK07006 257310019149 HMMPfam hit to PF00180, DE Isocitrate/isopropylmalate dehydrogenase, score 1.1e-145 257310019150 PS00470 Isocitrate and isopropylmalate dehydrogenases signature. 257310019151 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 257310019152 Cytochrome c553 [Energy production and conversion]; Region: COG2863 257310019153 Signal peptide predicted for BB3926 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.950 between residues 22 and 23; signal peptide 257310019154 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310019155 HMMPfam hit to PF00034, DE Cytochrome c, score 8.9e-11 257310019156 PS00190 Cytochrome c family heme-binding site signature. 257310019157 Signal peptide predicted for BB3927 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.978 between residues 28 and 29; signal peptide 257310019158 Cytochrome c553 [Energy production and conversion]; Region: COG2863 257310019159 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310019160 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00034, DE Cytochrome c, score 6.8e-09 257310019161 PS00190 Cytochrome c family heme-binding site signature. 257310019162 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310019163 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 257310019164 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310019165 Walker A motif; other site 257310019166 ATP binding site [chemical binding]; other site 257310019167 Walker B motif; other site 257310019168 arginine finger; other site 257310019169 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 5.4e-05 257310019170 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 257310019172 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 257310019173 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 257310019174 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 1.5e-15 257310019175 Signal peptide predicted for BB3932 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.964 between residues 25 and 26; signal peptide 257310019176 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 257310019177 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 257310019178 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 257310019179 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 257310019180 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 257310019181 HMMPfam hit to PF00675, DE Insulinase (Peptidase family M16), score 7.2e-16 257310019182 PS00143 Insulinase family, zinc-binding region signature. 257310019183 chaperone protein DnaJ; Provisional; Region: PRK10767 257310019184 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 257310019185 HSP70 interaction site [polypeptide binding]; other site 257310019186 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 257310019187 Zn binding sites [ion binding]; other site 257310019188 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 257310019189 dimer interface [polypeptide binding]; other site 257310019190 HMMPfam hit to PF01556, DE DnaJ C terminal region, score 2.1e-71 257310019191 HMMPfam hit to PF00684, DE DnaJ central domain (4 repeats), score 1.2e-42 257310019192 PS00637 CXXCXGXG dnaJ domain signature. 257310019193 PS00190 Cytochrome c family heme-binding site signature. 257310019194 HMMPfam hit to PF00226, DE DnaJ domain, score 1.3e-39 257310019195 PS00636 Nt-dnaJ domain signature. 257310019196 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 257310019197 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 257310019198 nucleotide binding site [chemical binding]; other site 257310019199 NEF interaction site [polypeptide binding]; other site 257310019200 SBD interface [polypeptide binding]; other site 257310019201 HMMPfam hit to PF00012, DE Hsp70 protein, score 0 257310019202 PS01036 Heat shock hsp70 proteins family signature 3. 257310019203 PS00329 Heat shock hsp70 proteins family signature 2. 257310019204 PS00297 Heat shock hsp70 proteins family signature 1. 257310019205 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 257310019206 GrpE; Region: GrpE; pfam01025 257310019207 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 257310019208 dimer interface [polypeptide binding]; other site 257310019209 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 257310019210 HMMPfam hit to PF01025, DE GrpE, score 2.1e-50 257310019211 PS01071 grpE protein signature. 257310019212 ferrochelatase; Reviewed; Region: hemH; PRK00035 257310019213 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 257310019214 C-terminal domain interface [polypeptide binding]; other site 257310019215 active site 257310019216 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 257310019217 active site 257310019218 N-terminal domain interface [polypeptide binding]; other site 257310019219 HMMPfam hit to PF00762, DE Ferrochelatase, score 1.9e-116 257310019220 PS00534 Ferrochelatase signature. 257310019221 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 257310019222 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 257310019223 HMMPfam hit to PF01628, DE HrcA protein C terminal domain, score 3.6e-50 257310019224 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 257310019225 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 257310019226 HMMPfam hit to PF01513, DE ATP-NAD kinase, score 2.2e-77 257310019227 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 257310019228 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 257310019229 Walker A/P-loop; other site 257310019230 ATP binding site [chemical binding]; other site 257310019231 Q-loop/lid; other site 257310019232 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 257310019233 ABC transporter signature motif; other site 257310019234 Walker B; other site 257310019235 D-loop; other site 257310019236 H-loop/switch region; other site 257310019237 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019238 ferric uptake regulator; Provisional; Region: fur; PRK09462 257310019239 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 257310019240 metal binding site 2 [ion binding]; metal-binding site 257310019241 putative DNA binding helix; other site 257310019242 metal binding site 1 [ion binding]; metal-binding site 257310019243 dimer interface [polypeptide binding]; other site 257310019244 structural Zn2+ binding site [ion binding]; other site 257310019245 HMMPfam hit to PF01475, DE Ferric uptake regulator family, score 4.8e-69 257310019246 Signal peptide predicted for BB3943 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.346 between residues 25 and 26; signal peptide 257310019247 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 257310019248 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 257310019249 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310019250 dihydrodipicolinate reductase; Provisional; Region: PRK00048 257310019251 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 257310019252 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 257310019253 HMMPfam hit to PF01113, DE Dihydrodipicolinate reductase, score 1.1e-69 257310019254 PS01298 Dihydrodipicolinate reductase signature. 257310019255 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 257310019256 FAD binding domain; Region: FAD_binding_4; pfam01565 257310019257 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 257310019258 HMMPfam hit to PF02873, DE UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain, score 2.4e-47 257310019259 PS00205 Transferrins signature 1. 257310019260 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310019261 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310019262 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.3e-57 257310019263 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 257310019264 putative active site [active] 257310019265 putative catalytic site [active] 257310019266 HMMPfam hit to PF01575, DE MaoC like domain, score 1.3e-13 257310019267 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 257310019268 enoyl-CoA hydratase; Provisional; Region: PRK06688 257310019269 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310019270 substrate binding site [chemical binding]; other site 257310019271 oxyanion hole (OAH) forming residues; other site 257310019272 trimer interface [polypeptide binding]; other site 257310019273 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 2.1e-38 257310019274 PS00166 enoyl-CoA hydratase signature. 257310019275 Signal peptide predicted for BB3950 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.825 between residues 37 and 38; signal peptide 257310019276 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310019277 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.2e-63 257310019278 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310019279 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310019280 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 257310019281 putative dimerization interface [polypeptide binding]; other site 257310019282 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.2e-39 257310019283 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.9e-14 257310019284 PS00044 Bacterial regulatory proteins, lysR family signature. 257310019285 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310019286 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310019287 10 probable transmembrane helices predicted for BB3952 by TMHMM2.0 at aa 21-43, 58-80, 87-106, 121-140, 152-174, 179-201, 242-264, 284-306, 319-341 and 403-425 257310019288 Signal peptide predicted for BB3953 by SignalP 2.0 HMM (Signal peptide probabilty 0.937) with cleavage site probability 0.799 between residues 26 and 27; signal peptide 257310019289 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 257310019290 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 257310019291 active site 257310019292 catalytic tetrad [active] 257310019293 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00248, DE Aldo/keto reductase family, score 1.5e-07 257310019294 Signal peptide predicted for BB3954 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 29 and 30; signal peptide 257310019295 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 257310019296 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 257310019297 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 4.9e-70 257310019298 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310019299 4 probable transmembrane helices predicted for BB3955 by TMHMM2.0 at aa 33-55, 65-84, 105-127 and 150-172 257310019300 Signal peptide predicted for BB3956 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.335 between residues 25 and 26; signal peptide 257310019301 DctM-like transporters; Region: DctM; pfam06808 257310019302 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 257310019303 11 probable transmembrane helices predicted for BB3956 by TMHMM2.0 at aa 5-27, 42-64, 93-115, 135-157, 164-186, 213-235, 242-259, 274-293, 313-335, 359-381 and 394-413 257310019304 HMMPfam hit to PF00597, DE DedA family, score 0.011 257310019305 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310019306 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310019307 DNA-binding site [nucleotide binding]; DNA binding site 257310019308 FCD domain; Region: FCD; pfam07729 257310019309 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 257310019310 HMMPfam hit to PF03328, DE HpcH/HpaI aldolase family, score 3.1e-35 257310019311 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 257310019312 extended (e) SDRs; Region: SDR_e; cd08946 257310019313 NAD(P) binding site [chemical binding]; other site 257310019314 active site 257310019315 substrate binding site [chemical binding]; other site 257310019316 Signal peptide predicted for BB3960 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.412 between residues 20 and 21; signal peptide 257310019317 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 257310019318 8 probable transmembrane helices predicted for BB3960 by TMHMM2.0 at aa 10-32, 39-61, 71-93, 102-121, 141-163, 176-198, 202-220 and 227-246 257310019319 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 257310019320 DNA binding residues [nucleotide binding] 257310019321 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 257310019322 dimer interface [polypeptide binding]; other site 257310019323 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 257310019324 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310019325 non-specific DNA binding site [nucleotide binding]; other site 257310019326 salt bridge; other site 257310019327 sequence-specific DNA binding site [nucleotide binding]; other site 257310019328 Cupin domain; Region: Cupin_2; pfam07883 257310019329 HMMPfam hit to PF00376, DE Bacterial regulatory proteins, merR family, score 3.7e-06 257310019330 HMMPfam hit to PF01381, DE Helix-turn-helix, score 3.5e-06 257310019331 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 257310019332 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310019333 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 257310019334 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 257310019335 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 257310019336 HMMPfam hit to PF01019, DE Gamma-glutamyltranspeptidase, score 1.2e-111 257310019337 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310019338 Signal peptide predicted for BB3965 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.930 between residues 37 and 38; signal peptide 257310019339 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310019340 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 9.6e-126 257310019341 Signal peptide predicted for BB3966 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 23 and 24; signal peptide 257310019342 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 257310019343 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 257310019344 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 257310019345 5 probable transmembrane helices predicted for BB3967 by TMHMM2.0 at aa 20-42, 54-76, 86-108, 128-150 and 160-182 257310019346 HMMPfam hit to PF01810, DE LysE type translocator, score 5.6e-15 257310019347 Signal peptide predicted for BB3968 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.998 between residues 48 and 49; signal peptide 257310019348 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310019349 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 257310019350 DoxX; Region: DoxX; pfam07681 257310019351 4 probable transmembrane helices predicted for BB3970 by TMHMM2.0 at aa 13-35, 45-67, 74-96 and 106-128 257310019352 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310019353 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310019354 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 257310019355 putative effector binding pocket; other site 257310019356 dimerization interface [polypeptide binding]; other site 257310019357 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.8e-11 257310019358 PS00044 Bacterial regulatory proteins, lysR family signature. 257310019359 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.3e-59 257310019360 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 257310019361 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 257310019362 nudix motif; other site 257310019363 HMMPfam hit to PF00293, DE NUDIX domain, score 2.3e-17 257310019364 PS00893 mutT domain signature. 257310019365 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 257310019366 HMMPfam hit to PF03588, DE Leucyl/phenylalanyl-tRNA protein transferase, score 6.2e-74 257310019367 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 257310019368 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 257310019369 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 257310019370 PS00190 Cytochrome c family heme-binding site signature. 257310019371 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 257310019372 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 257310019373 quinone interaction residues [chemical binding]; other site 257310019374 active site 257310019375 catalytic residues [active] 257310019376 FMN binding site [chemical binding]; other site 257310019377 substrate binding site [chemical binding]; other site 257310019378 HMMPfam hit to PF01180, DE Dihydroorotate dehydrogenase, score 1.1e-127 257310019379 PS00911 Dihydroorotate dehydrogenase signature 1. 257310019380 PS00912 Dihydroorotate dehydrogenase signature 2. 257310019381 Phasin protein; Region: Phasin_2; pfam09361 257310019382 Signal peptide predicted for BB3977 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.986 between residues 25 and 26; signal peptide 257310019383 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310019384 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 5.8e-118 257310019385 Rho-activating domain of cytotoxic necrotizing factor; Region: CNF1; pfam05785 257310019386 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019387 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310019388 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310019389 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310019390 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 2e-51 257310019391 PS01051 Bacterial regulatory proteins, iclR family signature. 257310019392 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 257310019393 competence damage-inducible protein A; Provisional; Region: PRK01215 257310019394 putative MPT binding site; other site 257310019395 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 257310019396 5 probable transmembrane helices predicted for BB3981 by TMHMM2.0 at aa 40-62, 96-127, 148-167, 171-190 and 218-240 257310019397 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 257310019398 catalytic residues [active] 257310019399 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 257310019400 putative Mg++ binding site [ion binding]; other site 257310019401 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 257310019402 nucleotide binding region [chemical binding]; other site 257310019403 ATP-binding site [chemical binding]; other site 257310019404 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 7.3e-34 257310019405 HMMPfam hit to PF00270, DE DEAD/DEAH box helicase, score 4.4e-56 257310019406 PS00039 DEAD-box subfamily ATP-dependent helicases signature. 257310019407 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019408 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 257310019409 2 probable transmembrane helices predicted for BB3984 by TMHMM2.0 at aa 7-29 and 82-104 257310019410 Signal peptide predicted for BB3985 by SignalP 2.0 HMM (Signal peptide probabilty 0.814) with cleavage site probability 0.394 between residues 23 and 24; signal peptide 257310019411 AzlC protein; Region: AzlC; pfam03591 257310019412 6 probable transmembrane helices predicted for BB3985 by TMHMM2.0 at aa 20-42, 57-79, 92-109, 124-146, 153-172 and 192-214 257310019413 HMMPfam hit to PF03591, DE AzlC protein, score 4.9e-21 257310019414 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 257310019415 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 257310019416 homodimer interface [polypeptide binding]; other site 257310019417 substrate-cofactor binding pocket; other site 257310019418 catalytic residue [active] 257310019419 HMMPfam hit to PF01063, DE Aminotransferase class IV, score 1.3e-91 257310019420 Zinc-finger domain; Region: zf-CHCC; cl01821 257310019421 SnoaL-like domain; Region: SnoaL_3; pfam13474 257310019422 SnoaL-like domain; Region: SnoaL_2; pfam12680 257310019423 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 257310019424 Signal peptide predicted for BB3990 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.802 between residues 34 and 35; signal peptide 257310019425 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 257310019426 Peptidase family M48; Region: Peptidase_M48; cl12018 257310019427 PS00583 pfkB family of carbohydrate kinases signature 1. 257310019428 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 257310019429 active site 257310019430 tetramer interface; other site 257310019431 HMMPfam hit to PF00483, DE Nucleotidyl transferase, score 8.4e-19 257310019432 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 257310019433 7 probable transmembrane helices predicted for BB3992 by TMHMM2.0 at aa 10-32, 45-64, 79-101, 121-143, 158-177, 190-212 and 240-262 257310019434 Signal peptide predicted for BB3993 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.963 between residues 26 and 27; signal peptide 257310019435 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 257310019436 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 257310019437 trimer interface [polypeptide binding]; other site 257310019438 eyelet of channel; other site 257310019439 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00267, DE Gram-negative porin, score 0.024 257310019440 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 257310019441 Signal peptide predicted for BB3995 by SignalP 2.0 HMM (Signal peptide probabilty 0.925) with cleavage site probability 0.709 between residues 18 and 19; signal peptide 257310019442 8 probable transmembrane helices predicted for BB3995 by TMHMM2.0 at aa 5-27, 40-62, 72-94, 123-142, 188-210, 255-277, 281-303 and 312-334 257310019443 HMMPfam hit to PF01699, DE Sodium/calcium exchanger protein, score 5.9e-05 257310019444 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 257310019445 proline aminopeptidase P II; Provisional; Region: PRK10879 257310019446 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 257310019447 active site 257310019448 HMMPfam hit to PF00557, DE metallopeptidase family M24, score 5.8e-82 257310019449 PS00491 Aminopeptidase P and proline dipeptidase signature. 257310019450 4 probable transmembrane helices predicted for BB3997 by TMHMM2.0 at aa 20-38, 43-62, 67-89 and 110-141 257310019451 hypothetical protein; Provisional; Region: PRK06996 257310019452 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 257310019453 HMMPfam hit to PF01360, DE Monooxygenase, score 4e-08 257310019454 PS01304 ubiH/COQ6 monooxygenase family signature. 257310019455 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 257310019456 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 257310019457 FMN binding site [chemical binding]; other site 257310019458 active site 257310019459 catalytic residues [active] 257310019460 substrate binding site [chemical binding]; other site 257310019461 HMMPfam hit to PF01207, DE Dihydrouridine synthase (Dus), score 3.5e-123 257310019462 PS01136 Uncharacterized protein family UPF0034 signature. 257310019463 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 257310019464 HMMPfam hit to PF02954, DE Bacterial regulatory protein, Fis family, score 1.9e-13 257310019465 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 257310019466 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 257310019467 purine monophosphate binding site [chemical binding]; other site 257310019468 dimer interface [polypeptide binding]; other site 257310019469 putative catalytic residues [active] 257310019470 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 257310019471 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 257310019472 HMMPfam hit to PF02142, DE MGS-like domain, score 1.4e-52 257310019473 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310019474 HMMPfam hit to PF01808, DE AICARFT/IMPCHase bienzyme, score 2e-153 257310019475 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 257310019476 active site 257310019477 putative DNA-binding cleft [nucleotide binding]; other site 257310019478 dimer interface [polypeptide binding]; other site 257310019479 HMMPfam hit to PF02075, DE Crossover junction endodeoxyribonuclease RuvC, score 3.2e-69 257310019480 PS00190 Cytochrome c family heme-binding site signature. 257310019481 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 257310019482 RuvA N terminal domain; Region: RuvA_N; pfam01330 257310019483 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 257310019484 HMMPfam hit to PF01330, DE RuvA N terminal domain, score 1.1e-29 257310019485 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310019486 HMMPfam hit to PF02904, DE RuvA central domain II, score 1.8e-31 257310019487 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 257310019488 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 257310019489 putative NAD(P) binding site [chemical binding]; other site 257310019490 active site 257310019491 serine racemase; Region: PLN02970 257310019492 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 257310019493 tetramer interface [polypeptide binding]; other site 257310019494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310019495 catalytic residue [active] 257310019496 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 2.8e-77 257310019497 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 257310019498 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310019499 Walker A motif; other site 257310019500 ATP binding site [chemical binding]; other site 257310019501 Walker B motif; other site 257310019502 arginine finger; other site 257310019503 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 257310019504 HMMPfam hit to PF00004, DE ATPase family associated with various cellular activities (AAA), score 1.3e-32 257310019505 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019506 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 257310019507 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 257310019508 ATP binding site [chemical binding]; other site 257310019509 putative Mg++ binding site [ion binding]; other site 257310019510 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 257310019511 nucleotide binding region [chemical binding]; other site 257310019512 ATP-binding site [chemical binding]; other site 257310019513 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 257310019514 HRDC domain; Region: HRDC; pfam00570 257310019515 HMMPfam hit to PF00570, DE HRDC domain, score 3e-15 257310019516 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310019517 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 1.1e-23 257310019518 HMMPfam hit to PF00270, DE DEAD/DEAH box helicase, score 3.1e-34 257310019519 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 257310019520 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310019521 osmolarity response regulator; Provisional; Region: ompR; PRK09468 257310019522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310019523 active site 257310019524 phosphorylation site [posttranslational modification] 257310019525 intermolecular recognition site; other site 257310019526 dimerization interface [polypeptide binding]; other site 257310019527 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310019528 DNA binding site [nucleotide binding] 257310019529 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 4.6e-40 257310019530 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 3.5e-25 257310019531 Signal peptide predicted for BB4010 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.872 between residues 29 and 30; signal peptide 257310019532 sensor protein RstB; Provisional; Region: PRK10604 257310019533 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310019534 ATP binding site [chemical binding]; other site 257310019535 Mg2+ binding site [ion binding]; other site 257310019536 G-X-G motif; other site 257310019537 2 probable transmembrane helices predicted for BB4010 by TMHMM2.0 at aa 15-37 and 192-214 257310019538 HMMPfam hit to PF00672, DE HAMP domain, score 5.1e-13 257310019539 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 0.0048 257310019540 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 4.3e-31 257310019541 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 257310019542 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 257310019543 HMMPfam hit to PF02322, DE Cytochrome oxidase subunit II, score 2.2e-12 257310019544 8 probable transmembrane helices predicted for BB4011 by TMHMM2.0 at aa 16-38, 88-110, 131-153, 163-185, 205-227, 237-256, 268-290 and 310-332 257310019545 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 257310019546 HMMPfam hit to PF01654, DE Bacterial Cytochrome Ubiquinol Oxidase, score 1.5e-26 257310019547 9 probable transmembrane helices predicted for BB4012 by TMHMM2.0 at aa 34-56, 76-98, 113-135, 147-169, 196-218, 238-260, 339-361, 373-395 and 427-449 257310019548 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 257310019549 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 257310019550 active site 257310019551 HIGH motif; other site 257310019552 nucleotide binding site [chemical binding]; other site 257310019553 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 257310019554 KMSKS motif; other site 257310019555 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 257310019556 HMMPfam hit to PF00749, DE tRNA synthetases class I (E and Q), catalytic domain, score 2.8e-133 257310019557 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310019558 HMMPfam hit to PF03950, DE tRNA synthetases class I (E and Q), anti-codon binding domain, score 9.1e-68 257310019559 septum formation inhibitor; Provisional; Region: minC; PRK00030 257310019560 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 257310019561 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 257310019562 HMMPfam hit to PF03775, DE Septum formation inhibitor MinC, score 3.7e-47 257310019563 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 257310019564 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 257310019565 Switch I; other site 257310019566 Switch II; other site 257310019567 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019568 HMMPfam hit to PF00991, DE ParA family ATPase, score 8e-05 257310019569 cell division topological specificity factor MinE; Provisional; Region: PRK13989 257310019570 HMMPfam hit to PF03776, DE Septum formation topological specificity factor MinE, score 1.3e-34 257310019571 Signal peptide predicted for BB4017 by SignalP 2.0 HMM (Signal peptide probabilty 0.993) with cleavage site probability 0.201 between residues 42 and 43; signal peptide 257310019572 1 probable transmembrane helix predicted for BB4017 by TMHMM2.0 at aa 36-58 257310019573 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310019574 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 257310019575 Isochorismatase family; Region: Isochorismatase; pfam00857 257310019576 catalytic triad [active] 257310019577 conserved cis-peptide bond; other site 257310019578 HMMPfam hit to PF00857, DE Isochorismatase family, score 9.5e-05 257310019579 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 257310019580 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310019581 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310019582 ABC transporter; Region: ABC_tran_2; pfam12848 257310019583 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310019584 HMMPfam hit to PF00005, DE ABC transporter score 3.1e-45 257310019585 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019586 HMMPfam hit to PF00005, DE ABC transporter score 3.1e-48 257310019587 PS00211 ABC transporters family signature. 257310019588 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019589 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310019590 EamA-like transporter family; Region: EamA; pfam00892 257310019591 EamA-like transporter family; Region: EamA; pfam00892 257310019592 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 6.1e-24 257310019593 10 probable transmembrane helices predicted for BB4020 by TMHMM2.0 at aa 20-39, 49-68, 81-100, 105-127, 132-151, 166-184, 196-215, 225-244, 257-274 and 279-296 257310019594 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 5.9e-23 257310019595 indole acetimide hydrolase; Validated; Region: PRK07488 257310019596 Amidase; Region: Amidase; cl11426 257310019597 HMMPfam hit to PF01425, DE Amidase, score 2.4e-114 257310019598 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019599 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 257310019600 dimer interface [polypeptide binding]; other site 257310019601 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 257310019602 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310019603 Walker A/P-loop; other site 257310019604 ATP binding site [chemical binding]; other site 257310019605 Q-loop/lid; other site 257310019606 ABC transporter signature motif; other site 257310019607 Walker B; other site 257310019608 D-loop; other site 257310019609 H-loop/switch region; other site 257310019610 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 257310019611 HMMPfam hit to PF00005, DE ABC transporter score 3.5e-58 257310019612 PS00211 ABC transporters family signature. 257310019613 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019614 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 257310019615 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310019616 Walker A/P-loop; other site 257310019617 ATP binding site [chemical binding]; other site 257310019618 Q-loop/lid; other site 257310019619 ABC transporter signature motif; other site 257310019620 Walker B; other site 257310019621 D-loop; other site 257310019622 H-loop/switch region; other site 257310019623 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310019624 HMMPfam hit to PF00005, DE ABC transporter score 2e-55 257310019625 PS00211 ABC transporters family signature. 257310019626 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019627 Signal peptide predicted for BB4026 by SignalP 2.0 HMM (Signal peptide probabilty 0.890) with cleavage site probability 0.638 between residues 39 and 40; signal peptide 257310019628 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 257310019629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310019630 dimer interface [polypeptide binding]; other site 257310019631 conserved gate region; other site 257310019632 putative PBP binding loops; other site 257310019633 ABC-ATPase subunit interface; other site 257310019634 6 probable transmembrane helices predicted for BB4026 by TMHMM2.0 at aa 21-43, 97-119, 126-147, 162-184, 215-237 and 270-292 257310019635 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.0056 257310019636 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310019637 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310019638 Signal peptide predicted for BB4027 by SignalP 2.0 HMM (Signal peptide probabilty 0.986) with cleavage site probability 0.397 between residues 28 and 29; signal peptide 257310019639 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310019640 dimer interface [polypeptide binding]; other site 257310019641 conserved gate region; other site 257310019642 putative PBP binding loops; other site 257310019643 ABC-ATPase subunit interface; other site 257310019644 6 probable transmembrane helices predicted for BB4027 by TMHMM2.0 at aa 9-31, 96-118, 131-153, 188-207, 246-268 and 288-310 257310019645 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.0023 257310019646 Signal peptide predicted for BB4028 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.836 between residues 22 and 23; signal peptide 257310019647 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 257310019648 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 257310019649 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 3.7e-51 257310019650 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310019651 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 257310019652 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 257310019653 active site 257310019654 HMMPfam hit to PF00535, DE Glycosyl transferase, score 1.1e-28 257310019655 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310019656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310019657 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 257310019658 putative effector binding pocket; other site 257310019659 dimerization interface [polypeptide binding]; other site 257310019660 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 3.5e-18 257310019661 PS00044 Bacterial regulatory proteins, lysR family signature. 257310019662 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.7e-28 257310019663 Signal peptide predicted for BB4031 by SignalP 2.0 HMM (Signal peptide probabilty 0.942) with cleavage site probability 0.496 between residues 22 and 23; signal peptide 257310019664 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 257310019665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310019666 Walker A/P-loop; other site 257310019667 ATP binding site [chemical binding]; other site 257310019668 Q-loop/lid; other site 257310019669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310019670 ABC transporter signature motif; other site 257310019671 Walker B; other site 257310019672 D-loop; other site 257310019673 H-loop/switch region; other site 257310019674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310019675 Walker A/P-loop; other site 257310019676 ATP binding site [chemical binding]; other site 257310019677 Q-loop/lid; other site 257310019678 ABC transporter signature motif; other site 257310019679 Walker B; other site 257310019680 D-loop; other site 257310019681 H-loop/switch region; other site 257310019682 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 257310019683 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 257310019684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310019685 Walker A/P-loop; other site 257310019686 ATP binding site [chemical binding]; other site 257310019687 Q-loop/lid; other site 257310019688 ABC transporter signature motif; other site 257310019689 Walker B; other site 257310019690 D-loop; other site 257310019691 H-loop/switch region; other site 257310019692 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019693 HMMPfam hit to PF00005, DE ABC transporter score 2.4e-06 257310019694 HMMPfam hit to PF00005, DE ABC transporter score 4.5e-24 257310019695 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019696 HMMPfam hit to PF00005, DE ABC transporter score 4.9e-07 257310019697 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019698 PS00190 Cytochrome c family heme-binding site signature. 257310019699 PS00211 ABC transporters family signature. 257310019700 HMMPfam hit to PF00005, DE ABC transporter score 1.3e-15 257310019701 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019702 PS00211 ABC transporters family signature. 257310019703 aminodeoxychorismate synthase; Provisional; Region: PRK07508 257310019704 chorismate binding enzyme; Region: Chorismate_bind; cl10555 257310019705 HMMPfam hit to PF00425, DE chorismate binding enzyme, score 9.6e-85 257310019706 hypothetical protein; Provisional; Region: PRK07546 257310019707 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 257310019708 substrate-cofactor binding pocket; other site 257310019709 short chain dehydrogenase; Provisional; Region: PRK07577 257310019710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310019711 NAD(P) binding site [chemical binding]; other site 257310019712 active site 257310019713 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.2e-56 257310019714 Signal peptide predicted for BB4036 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.488 between residues 32 and 33; signal peptide 257310019715 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310019716 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 9.2e-98 257310019717 PS00138 Serine proteases, subtilase family, serine active site. 257310019718 acyl-CoA synthetase; Validated; Region: PRK06164 257310019719 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310019720 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310019721 AMP binding site [chemical binding]; other site 257310019722 active site 257310019723 acyl-activating enzyme (AAE) consensus motif; other site 257310019724 CoA binding site [chemical binding]; other site 257310019725 HMMPfam hit to PF00501, DE AMP-binding protein, score 2.5e-64 257310019726 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310019727 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019728 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310019729 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310019730 DNA-binding site [nucleotide binding]; DNA binding site 257310019731 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 257310019732 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 3.1e-16 257310019733 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 257310019734 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 257310019735 putative ATP binding site [chemical binding]; other site 257310019736 putative substrate interface [chemical binding]; other site 257310019737 HMMPfam hit to PF00899, DE ThiF family, score 1.9e-34 257310019738 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310019739 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310019740 putative substrate translocation pore; other site 257310019741 9 probable transmembrane helices predicted for BB4040 by TMHMM2.0 at aa 19-41, 48-70, 80-102, 109-128, 143-165, 172-191, 258-280, 301-323 and 362-384 257310019742 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310019743 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310019744 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 257310019745 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 257310019746 putative active site pocket [active] 257310019747 dimerization interface [polypeptide binding]; other site 257310019748 putative catalytic residue [active] 257310019749 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 257310019750 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 257310019751 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 257310019752 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01243, DE Pyridoxamine 5'-phosphate oxidase, score 2.8e-100 257310019753 PS01064 Pyridoxamine 5'-phosphate oxidase signature. 257310019754 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 257310019755 HMMPfam hit to PF01613, DE Flavin reductase like domain, score 6.1e-48 257310019756 Signal peptide predicted for BB4044 by SignalP 2.0 HMM (Signal peptide probabilty 0.813) with cleavage site probability 0.780 between residues 24 and 25; signal peptide 257310019757 Predicted dehydrogenase [General function prediction only]; Region: COG0579 257310019758 hydroxyglutarate oxidase; Provisional; Region: PRK11728 257310019759 HMMPfam hit to PF01266, DE FAD dependent oxidoreductase, score 0.0027 257310019760 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 257310019761 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 257310019762 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 257310019763 putative active site [active] 257310019764 putative substrate binding site [chemical binding]; other site 257310019765 putative cosubstrate binding site; other site 257310019766 catalytic site [active] 257310019767 HMMPfam hit to PF01842, DE ACT domain, score 7e-09 257310019768 HMMPfam hit to PF00551, DE Formyl transferase, score 1.3e-40 257310019769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310019770 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 257310019771 putative dimerization interface [polypeptide binding]; other site 257310019772 putative substrate binding pocket [chemical binding]; other site 257310019773 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.5e-45 257310019774 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.9e-28 257310019775 PS00044 Bacterial regulatory proteins, lysR family signature. 257310019776 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310019777 active site 257310019778 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 7.2e-08 257310019779 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 3.9e-49 257310019780 PS00073 Acyl-CoA dehydrogenases signature 2. 257310019781 Signal peptide predicted for BB4048 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 26 and 27; signal peptide 257310019782 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310019783 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.5e-122 257310019784 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310019785 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310019786 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 2e-64 257310019787 Signal peptide predicted for BB4050 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 22 and 23; signal peptide 257310019788 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 257310019789 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 257310019790 HMMPfam hit to PF01019, DE Gamma-glutamyltranspeptidase, score 1.4e-176 257310019791 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 257310019792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310019793 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310019794 dimerization interface [polypeptide binding]; other site 257310019795 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.4e-16 257310019796 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 5.4e-33 257310019797 Signal peptide predicted for BB4052 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.968 between residues 25 and 26; signal peptide 257310019798 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310019799 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.9e-105 257310019800 Predicted permeases [General function prediction only]; Region: COG0679 257310019801 9 probable transmembrane helices predicted for BB4053 by TMHMM2.0 at aa 13-35, 55-74, 87-109, 145-167, 180-202, 207-229, 238-260, 270-292 and 297-319 257310019802 fumarate hydratase; Reviewed; Region: fumC; PRK00485 257310019803 Class II fumarases; Region: Fumarase_classII; cd01362 257310019804 active site 257310019805 tetramer interface [polypeptide binding]; other site 257310019806 HMMPfam hit to PF00206, DE Lyase, score 2.5e-197 257310019807 PS00163 Fumarate lyases signature. 257310019808 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 257310019809 HMMPfam hit to PF02367, DE Uncharacterised P-loop hydrolase UPF0079, score 2e-37 257310019810 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019811 AMIN domain; Region: AMIN; pfam11741 257310019812 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 257310019813 active site 257310019814 metal binding site [ion binding]; metal-binding site 257310019815 HMMPfam hit to PF01520, DE N-acetylmuramoyl-L-alanine amidase, score 8.5e-60 257310019816 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 257310019817 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 257310019818 4 probable transmembrane helices predicted for BB4057 by TMHMM2.0 at aa 24-46, 66-88, 152-174 and 184-206 257310019819 HMMPfam hit to PF00597, DE DedA family, score 2.5e-22 257310019820 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 257310019821 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310019822 ATP binding site [chemical binding]; other site 257310019823 Mg2+ binding site [ion binding]; other site 257310019824 G-X-G motif; other site 257310019825 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 257310019826 ATP binding site [chemical binding]; other site 257310019827 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 257310019828 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 4.3e-10 257310019829 PS00058 DNA mismatch repair proteins mutL / hexB / PMS1 signature. 257310019830 HMMPfam hit to PF01119, DE DNA mismatch repair protein, C-terminal domain, score 3.4e-29 257310019831 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 257310019832 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 257310019833 Signal peptide predicted for BB4059 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.522 between residues 25 and 26; signal peptide 257310019834 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019835 HMMPfam hit to PF01715, DE IPP transferase, score 5.8e-120 257310019836 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 257310019837 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 257310019838 dimerization interface [polypeptide binding]; other site 257310019839 putative ATP binding site [chemical binding]; other site 257310019840 HMMPfam hit to PF02769, DE AIR synthase related protein, C-terminal domain, score 1.3e-45 257310019841 HMMPfam hit to PF00586, DE AIR synthase related protein, N-terminal domain, score 1.1e-65 257310019842 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 257310019843 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 257310019844 Walker A motif; other site 257310019845 ATP binding site [chemical binding]; other site 257310019846 Walker B motif; other site 257310019847 arginine finger; other site 257310019848 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 257310019849 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 257310019850 poly(A) polymerase; Region: pcnB; TIGR01942 257310019851 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 257310019852 active site 257310019853 NTP binding site [chemical binding]; other site 257310019854 metal binding triad [ion binding]; metal-binding site 257310019855 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 257310019856 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 257310019857 HMMPfam hit to PF01743, DE Poly A polymerase family, score 6.3e-53 257310019858 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019859 Signal peptide predicted for BB4064 by SignalP 2.0 HMM (Signal peptide probabilty 0.640) with cleavage site probability 0.365 between residues 22 and 23; signal peptide 257310019860 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 257310019861 catalytic center binding site [active] 257310019862 ATP binding site [chemical binding]; other site 257310019863 HMMPfam hit to PF01288, DE 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK), score 3.7e-51 257310019864 PS00794 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase signature. 257310019865 Signal peptide predicted for BB4065 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 23 and 24; signal peptide 257310019866 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310019867 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6.5e-90 257310019868 Signal peptide predicted for BB4066 by SignalP 2.0 HMM (Signal peptide probabilty 0.786) with cleavage site probability 0.529 between residues 17 and 18; signal peptide 257310019869 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 257310019870 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 1.5e-37 257310019871 PS00211 ABC transporters family signature. 257310019872 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 257310019873 DctM-like transporters; Region: DctM; pfam06808 257310019874 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 257310019875 17 probable transmembrane helices predicted for BB4067 by TMHMM2.0 at aa 44-66, 76-98, 118-140, 166-188, 200-222, 227-244, 249-271, 286-308, 321-343, 367-389, 410-432, 447-469, 490-512, 548-566, 587-609, 629-651 and 672-694 257310019876 Signal peptide predicted for BB4068 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.903 between residues 31 and 32; signal peptide 257310019877 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310019878 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 2.2e-24 257310019879 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310019880 DNA-binding site [nucleotide binding]; DNA binding site 257310019881 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310019882 FCD domain; Region: FCD; pfam07729 257310019883 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.2e-18 257310019884 Signal peptide predicted for BB4070 by SignalP 2.0 HMM (Signal peptide probabilty 0.944) with cleavage site probability 0.517 between residues 19 and 20; signal peptide 257310019885 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 257310019886 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257310019887 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310019888 PS00895 3-hydroxyisobutyrate dehydrogenase signature. 257310019889 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 257310019890 HMMPfam hit to PF02627, DE Carboxymuconolactone decarboxylase, score 2.4e-28 257310019891 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 257310019892 HMMPfam hit to PF00753, DE Metallo-beta-lactamase superfamily, score 0.00098 257310019893 PS00136 Serine proteases, subtilase family, aspartic acid active site. 257310019894 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 257310019895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310019896 NAD(P) binding site [chemical binding]; other site 257310019897 active site 257310019898 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 4.5e-72 257310019899 PS00061 Short-chain dehydrogenases/reductases family signature. 257310019900 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 257310019901 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257310019902 HMMPfam hit to PF03446, DE NAD binding domain of 6-phosphogluconate dehydrogenase, score 0.0051 257310019903 Signal peptide predicted for BB4075 by SignalP 2.0 HMM (Signal peptide probabilty 0.821) with cleavage site probability 0.464 between residues 25 and 26; signal peptide 257310019904 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310019905 classical (c) SDRs; Region: SDR_c; cd05233 257310019906 NAD(P) binding site [chemical binding]; other site 257310019907 active site 257310019908 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.7e-51 257310019909 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310019910 PS00435 Peroxidases proximal heme-ligand signature. 257310019911 Signal peptide predicted for BB4076 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.683 between residues 29 and 30; signal peptide 257310019912 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310019913 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.9e-110 257310019914 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 257310019915 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 257310019916 substrate binding site [chemical binding]; other site 257310019917 ATP binding site [chemical binding]; other site 257310019918 HMMPfam hit to PF00294, DE pfkB family carbohydrate kinase, score 3.8e-19 257310019919 PS00584 pfkB family of carbohydrate kinases signature 2. 257310019920 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 257310019921 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310019922 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310019923 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.5e-51 257310019924 PS00017 ATP/GTP-binding site motif A (P-loop). 257310019925 Uncharacterized conserved protein [Function unknown]; Region: COG3777 257310019926 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310019927 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310019928 active site 2 [active] 257310019929 active site 1 [active] 257310019930 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 257310019931 Fumarase C-terminus; Region: Fumerase_C; pfam05683 257310019932 enoyl-CoA hydratase; Provisional; Region: PRK08252 257310019933 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310019934 substrate binding site [chemical binding]; other site 257310019935 oxyanion hole (OAH) forming residues; other site 257310019936 trimer interface [polypeptide binding]; other site 257310019937 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.3e-46 257310019938 PS00166 enoyl-CoA hydratase signature. 257310019939 Signal peptide predicted for BB4083 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.938 between residues 26 and 27; signal peptide 257310019940 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310019941 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7.8e-107 257310019942 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310019943 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310019944 DNA-binding site [nucleotide binding]; DNA binding site 257310019945 UTRA domain; Region: UTRA; pfam07702 257310019946 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 3.9e-19 257310019947 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 257310019948 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 257310019949 substrate binding site [chemical binding]; other site 257310019950 ligand binding site [chemical binding]; other site 257310019951 HMMPfam hit to PF00330, DE Aconitase family (aconitate hydratase), score 1.1e-54 257310019952 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 257310019953 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 257310019954 substrate binding site [chemical binding]; other site 257310019955 HMMPfam hit to PF00694, DE Aconitase C-terminal domain, score 1.4e-06 257310019956 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 257310019957 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 257310019958 tetramer interface [polypeptide binding]; other site 257310019959 active site 257310019960 Mg2+/Mn2+ binding site [ion binding]; other site 257310019961 PS00161 Isocitrate lyase signature. 257310019962 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310019963 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310019964 putative substrate translocation pore; other site 257310019965 11 probable transmembrane helices predicted for BB4088 by TMHMM2.0 at aa 15-37, 49-71, 86-120, 141-163, 167-186, 215-237, 250-272, 279-301, 305-327, 340-362 and 367-389 257310019966 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0013 257310019967 PS00213 Lipocalin signature. 257310019968 PS01125 ROK family signature. 257310019969 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 257310019970 dimer interface [polypeptide binding]; other site 257310019971 motif 1; other site 257310019972 active site 257310019973 motif 2; other site 257310019974 motif 3; other site 257310019975 HMMPfam hit to PF02091, DE Glycyl-tRNA synthetase alpha subunit, score 9.3e-229 257310019976 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310019977 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 257310019978 HMMPfam hit to PF02092, DE Glycyl-tRNA synthetase beta subunit, score 1.1e-138 257310019979 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 257310019980 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310019981 active site 257310019982 motif I; other site 257310019983 motif II; other site 257310019984 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 0.042 257310019985 Signal peptide predicted for BB4092 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.995 between residues 23 and 24; signal peptide 257310019986 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 257310019987 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 257310019988 putative acyl-acceptor binding pocket; other site 257310019989 HMMPfam hit to PF01553, DE Acyltransferase, score 1e-24 257310019990 Protein of unknown function DUF45; Region: DUF45; pfam01863 257310019991 HMMPfam hit to PF01863, DE Protein of unknown function DUF45, score 3.9e-07 257310019992 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310019993 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 257310019994 dimer interface [polypeptide binding]; other site 257310019995 active site 257310019996 metal binding site [ion binding]; metal-binding site 257310019997 glutathione binding site [chemical binding]; other site 257310019998 PS00934 Glyoxalase I signature 1. 257310019999 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00903, DE Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily, score 4.6e-40 257310020000 PS00935 Glyoxalase I signature 2. 257310020001 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 257310020002 active site 257310020003 catalytic residues [active] 257310020004 metal binding site [ion binding]; metal-binding site 257310020005 HMMPfam hit to PF01327, DE Polypeptide deformylase, score 1.9e-45 257310020006 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 257310020007 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310020008 active site 257310020009 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 257310020010 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 4.2e-28 257310020011 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 0.0004 257310020012 Signal peptide predicted for BB4097 by SignalP 2.0 HMM (Signal peptide probabilty 0.686) with cleavage site probability 0.648 between residues 20 and 21; signal peptide 257310020013 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 257310020014 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 257310020015 7 probable transmembrane helices predicted for BB4097 by TMHMM2.0 at aa 93-115, 125-147, 156-178, 182-204, 231-250, 310-332 and 339-361 257310020016 HMMPfam hit to PF03751, DE Domain of unknown function (DUF311), score 2.2e-40 257310020017 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 257310020018 pyruvate kinase; Provisional; Region: PRK05826 257310020019 domain interfaces; other site 257310020020 active site 257310020021 HMMPfam hit to PF02887, DE Pyruvate kinase, alpha/beta domain, score 4e-24 257310020022 HMMPfam hit to PF00224, DE Pyruvate kinase, barrel domain, score 8.3e-165 257310020023 PS00110 Pyruvate kinase active site signature. 257310020024 glycerate kinase; Region: TIGR00045 257310020025 HMMPfam hit to PF02595, DE Uncharacterized BCR, COG1929, score 2.7e-177 257310020026 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020027 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 257310020028 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310020029 S-adenosylmethionine binding site [chemical binding]; other site 257310020030 HMMPfam hit to PF00398, DE Ribosomal RNA adenine dimethylase, score 1.7e-61 257310020031 Signal peptide predicted for BB4101 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.804 between residues 31 and 32; signal peptide 257310020032 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 257310020033 SurA N-terminal domain; Region: SurA_N; pfam09312 257310020034 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 257310020035 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 257310020036 HMMPfam hit to PF00639, DE PPIC-type PPIASE domain, score 1e-36 257310020037 HMMPfam hit to PF00639, DE PPIC-type PPIASE domain, score 9.5e-13 257310020038 Signal peptide predicted for BB4102 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.919 between residues 20 and 21; signal peptide 257310020039 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 257310020040 Organic solvent tolerance protein; Region: OstA_C; pfam04453 257310020041 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 257310020042 Phosphotransferase enzyme family; Region: APH; pfam01636 257310020043 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 257310020044 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 257310020045 Substrate binding site; other site 257310020046 metal-binding site 257310020047 HMMPfam hit to PF00483, DE Nucleotidyl transferase, score 6.6e-13 257310020048 Signal peptide predicted for BB4105 by SignalP 2.0 HMM (Signal peptide probabilty 0.773) with cleavage site probability 0.492 between residues 46 and 47; signal peptide 257310020049 hypothetical protein; Validated; Region: PRK09039 257310020050 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 257310020051 aromatic arch; other site 257310020052 DCoH dimer interaction site [polypeptide binding]; other site 257310020053 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 257310020054 DCoH tetramer interaction site [polypeptide binding]; other site 257310020055 substrate binding site [chemical binding]; other site 257310020056 HMMPfam hit to PF01329, DE Pterin 4 alpha carbinolamine dehydratase, score 4.5e-34 257310020057 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 257310020058 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 257310020059 ligand binding site [chemical binding]; other site 257310020060 HMMPfam hit to PF00691, DE OmpA family, score 7.4e-28 257310020061 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020062 Signal peptide predicted for BB4108 by SignalP 2.0 HMM (Signal peptide probabilty 0.731) with cleavage site probability 0.411 between residues 34 and 35; signal peptide 257310020063 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 257310020064 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 257310020065 tetramer interface [polypeptide binding]; other site 257310020066 active site 257310020067 Mg2+/Mn2+ binding site [ion binding]; other site 257310020068 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 257310020069 aminotransferase; Validated; Region: PRK07678 257310020070 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310020071 inhibitor-cofactor binding pocket; inhibition site 257310020072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310020073 catalytic residue [active] 257310020074 HMMPfam hit to PF00202, DE Aminotransferase class-III, score 1.1e-89 257310020075 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020076 amidase; Provisional; Region: PRK07487 257310020077 Amidase; Region: Amidase; cl11426 257310020078 HMMPfam hit to PF01425, DE Amidase, score 2.7e-62 257310020079 PS00571 Amidases signature. 257310020080 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 257310020081 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310020082 Walker A/P-loop; other site 257310020083 ATP binding site [chemical binding]; other site 257310020084 Q-loop/lid; other site 257310020085 ABC transporter signature motif; other site 257310020086 Walker B; other site 257310020087 D-loop; other site 257310020088 H-loop/switch region; other site 257310020089 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310020090 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310020091 Walker A/P-loop; other site 257310020092 ATP binding site [chemical binding]; other site 257310020093 Q-loop/lid; other site 257310020094 ABC transporter signature motif; other site 257310020095 Walker B; other site 257310020096 D-loop; other site 257310020097 H-loop/switch region; other site 257310020098 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310020099 HMMPfam hit to PF00005, DE ABC transporter score 7.2e-62 257310020100 PS00211 ABC transporters family signature. 257310020101 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020102 HMMPfam hit to PF00005, DE ABC transporter score 2.1e-57 257310020103 PS00211 ABC transporters family signature. 257310020104 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020105 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 257310020106 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310020107 dimer interface [polypeptide binding]; other site 257310020108 conserved gate region; other site 257310020109 putative PBP binding loops; other site 257310020110 ABC-ATPase subunit interface; other site 257310020111 5 probable transmembrane helices predicted for BB4113 by TMHMM2.0 at aa 30-52, 95-117, 137-159, 217-239 and 259-278 257310020112 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 7.5e-09 257310020113 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310020114 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310020115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310020116 dimer interface [polypeptide binding]; other site 257310020117 conserved gate region; other site 257310020118 putative PBP binding loops; other site 257310020119 ABC-ATPase subunit interface; other site 257310020120 6 probable transmembrane helices predicted for BB4114 by TMHMM2.0 at aa 5-27, 100-122, 135-157, 177-196, 232-254 and 285-307 257310020121 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.015 257310020122 Signal peptide predicted for BB4115 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.895 between residues 38 and 39; signal peptide 257310020123 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 257310020124 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257310020125 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 2e-15 257310020126 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310020127 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310020128 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310020129 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 2.7e-21 257310020130 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310020131 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 257310020132 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 257310020133 dimer interface [polypeptide binding]; other site 257310020134 active site 257310020135 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 257310020136 catalytic residues [active] 257310020137 substrate binding site [chemical binding]; other site 257310020138 Signal peptide predicted for BB4119 by SignalP 2.0 HMM (Signal peptide probabilty 0.648) with cleavage site probability 0.520 between residues 20 and 21; signal peptide 257310020139 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 257310020140 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 257310020141 NAD(P) binding pocket [chemical binding]; other site 257310020142 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020143 RNA polymerase sigma factor; Reviewed; Region: PRK12527 257310020144 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310020145 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 257310020146 DNA binding residues [nucleotide binding] 257310020147 HMMPfam hit to PF00776, , score 0.00014 257310020148 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 257310020149 FecR protein; Region: FecR; pfam04773 257310020150 1 probable transmembrane helix predicted for BB4121 by TMHMM2.0 at aa 86-105 257310020151 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020152 Signal peptide predicted for BB4122 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 51 and 52; signal peptide 257310020153 Secretin and TonB N terminus short domain; Region: STN; smart00965 257310020154 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 257310020155 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310020156 N-terminal plug; other site 257310020157 ligand-binding site [chemical binding]; other site 257310020158 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020159 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 1.7e-28 257310020160 Signal peptide predicted for BB4123 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 23 and 24; signal peptide 257310020161 Uncharacterized conserved protein [Function unknown]; Region: COG2353 257310020162 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 257310020163 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 257310020164 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 257310020165 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 257310020166 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 7.3e-09 257310020167 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 257310020168 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 257310020169 iron-sulfur cluster [ion binding]; other site 257310020170 [2Fe-2S] cluster binding site [ion binding]; other site 257310020171 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 257310020172 putative alpha subunit interface [polypeptide binding]; other site 257310020173 putative active site [active] 257310020174 putative substrate binding site [chemical binding]; other site 257310020175 Fe binding site [ion binding]; other site 257310020176 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 1.2e-27 257310020177 PS00570 Bacterial ring hydroxylating dioxygenases alpha-subunit signature. 257310020178 PS00030 Eukaryotic RNA-binding region RNP-1 signature. 257310020179 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00848, DE Ring hydroxylating alpha subunit (catalytic domain), score 2.5e-10 257310020180 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 257310020181 inter-subunit interface; other site 257310020182 HMMPfam hit to PF00866, DE Ring hydroxylating beta subunit, score 1.3e-30 257310020183 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310020184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310020185 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310020186 dimerization interface [polypeptide binding]; other site 257310020187 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.1e-16 257310020188 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.8e-26 257310020189 PS00044 Bacterial regulatory proteins, lysR family signature. 257310020190 Signal peptide predicted for BB4128 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.738 between residues 41 and 42; signal peptide 257310020191 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310020192 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020193 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.4e-80 257310020194 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310020195 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 1.7e-21 257310020196 PS01037 Bacterial extracellular substrate-binding proteins, family 1 signature. 257310020197 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310020198 homotrimer interaction site [polypeptide binding]; other site 257310020199 putative active site [active] 257310020200 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 5.4e-19 257310020201 PydA is a Class III Extradiol ring-cleavage dioxygenase required for the degradation of 3-hydroxy-4-pyridone (HP); Region: PydA_Rs_like; cd07369 257310020202 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 257310020203 putative active site [active] 257310020204 Fe(II) binding site [ion binding]; other site 257310020205 putative dimer interface [polypeptide binding]; other site 257310020206 putative tetramer interface [polypeptide binding]; other site 257310020207 HMMPfam hit to PF02900, DE Catalytic LigB subunit of aromatic ring-opening dioxygenase, score 7.8e-29 257310020208 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020209 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 257310020210 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 257310020211 HMMPfam hit to PF01557, DE Fumarylacetoacetate (FAA) hydrolase family, score 8.6e-83 257310020212 Signal peptide predicted for BB4134 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.888 between residues 37 and 38; signal peptide 257310020213 Signal peptide predicted for BB4135 by SignalP 2.0 HMM (Signal peptide probabilty 0.931) with cleavage site probability 0.369 between residues 23 and 24; signal peptide 257310020214 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020215 Signal peptide predicted for BB4136 by SignalP 2.0 HMM (Signal peptide probabilty 0.993) with cleavage site probability 0.221 between residues 45 and 46; signal peptide 257310020216 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020217 phage-related region 257310020218 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 257310020219 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 257310020220 active site 257310020221 DNA binding site [nucleotide binding] 257310020222 Int/Topo IB signature motif; other site 257310020223 HMMPfam hit to PF00589, DE Phage integrase family, score 3.9e-08 257310020224 Helix-turn-helix domain; Region: HTH_17; pfam12728 257310020225 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 257310020226 AAA domain; Region: AAA_25; pfam13481 257310020227 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 257310020228 Walker A motif; other site 257310020229 ATP binding site [chemical binding]; other site 257310020230 Walker B motif; other site 257310020231 Signal peptide predicted for BB4141 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.780 between residues 32 and 33; signal peptide 257310020232 2 probable transmembrane helices predicted for BB4149 by TMHMM2.0 at aa 110-132 and 136-158 257310020233 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 257310020234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310020235 NAD(P) binding site [chemical binding]; other site 257310020236 active site 257310020237 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 6e-87 257310020238 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310020239 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310020240 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 9.1e-12 257310020241 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 257310020242 Signal peptide predicted for BB4152 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.351 between residues 26 and 27; signal peptide 257310020243 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 257310020244 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 257310020245 HMMPfam hit to PF03352, DE Methyladenine glycosylase, score 9.4e-80 257310020246 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 257310020247 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 257310020248 DNA binding residues [nucleotide binding] 257310020249 dimer interface [polypeptide binding]; other site 257310020250 [2Fe-2S] cluster binding site [ion binding]; other site 257310020251 HMMPfam hit to PF00376, DE Bacterial regulatory proteins, merR family, score 8.6e-12 257310020252 PS00552 Bacterial regulatory proteins, merR family signature. 257310020253 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310020254 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310020255 Signal peptide predicted for BB4156 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 21 and 22; signal peptide 257310020256 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 257310020257 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 257310020258 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 7e-42 257310020259 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020260 1 probable transmembrane helix predicted for BB4156 by TMHMM2.0 at aa 7-29 257310020261 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 257310020262 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 257310020263 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 257310020264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310020265 Walker A/P-loop; other site 257310020266 ATP binding site [chemical binding]; other site 257310020267 Q-loop/lid; other site 257310020268 ABC transporter signature motif; other site 257310020269 Walker B; other site 257310020270 D-loop; other site 257310020271 H-loop/switch region; other site 257310020272 HMMPfam hit to PF00005, DE ABC transporter score 1.9e-52 257310020273 PS00211 ABC transporters family signature. 257310020274 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020275 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 257310020276 Signal peptide predicted for BB4159 by SignalP 2.0 HMM (Signal peptide probabilty 0.921) with cleavage site probability 0.563 between residues 28 and 29; signal peptide 257310020277 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310020278 dimer interface [polypeptide binding]; other site 257310020279 conserved gate region; other site 257310020280 putative PBP binding loops; other site 257310020281 ABC-ATPase subunit interface; other site 257310020282 6 probable transmembrane helices predicted for BB4159 by TMHMM2.0 at aa 7-29, 73-95, 107-129, 139-161, 182-204 and 241-260 257310020283 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.5e-11 257310020284 Signal peptide predicted for BB4160 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.722 between residues 28 and 29; signal peptide 257310020285 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310020286 dimer interface [polypeptide binding]; other site 257310020287 conserved gate region; other site 257310020288 putative PBP binding loops; other site 257310020289 ABC-ATPase subunit interface; other site 257310020290 6 probable transmembrane helices predicted for BB4160 by TMHMM2.0 at aa 13-35, 67-89, 102-124, 156-178, 199-221 and 257-279 257310020291 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4e-11 257310020292 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 257310020293 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 2.2e-08 257310020294 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310020295 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7.8e-83 257310020296 Transcriptional regulators [Transcription]; Region: FadR; COG2186 257310020297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310020298 DNA-binding site [nucleotide binding]; DNA binding site 257310020299 FCD domain; Region: FCD; pfam07729 257310020300 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 3.2e-15 257310020301 PS00043 Bacterial regulatory proteins, gntR family signature. 257310020302 Protein of unknown function (DUF521); Region: DUF521; pfam04412 257310020303 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 257310020304 substrate binding site [chemical binding]; other site 257310020305 ligand binding site [chemical binding]; other site 257310020306 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 257310020307 substrate binding site [chemical binding]; other site 257310020308 HMMPfam hit to PF01989, DE Protein of unknown function DUF126, score 1.6e-10 257310020309 Uncharacterized conserved protein [Function unknown]; Region: COG1359 257310020310 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02619, DE Uncharacterized ACR, YneC family COG1359, score 1.8e-08 257310020311 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 257310020312 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 257310020313 active site 257310020314 NAD binding site [chemical binding]; other site 257310020315 metal binding site [ion binding]; metal-binding site 257310020316 HMMPfam hit to PF00465, DE Iron-containing alcohol dehydrogenase, score 1.2e-89 257310020317 PS00913 Iron-containing alcohol dehydrogenases signature 1. 257310020318 Signal peptide predicted for BB4169 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 25 and 26; signal peptide 257310020319 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 257310020320 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 257310020321 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03180, DE NLPA lipoprotein, score 4.2e-134 257310020322 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310020323 ABC-ATPase subunit interface; other site 257310020324 5 probable transmembrane helices predicted for BB4170 by TMHMM2.0 at aa 5-24, 37-59, 63-85, 124-146 and 166-188 257310020325 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 7.2e-18 257310020326 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 257310020327 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 257310020328 Walker A/P-loop; other site 257310020329 ATP binding site [chemical binding]; other site 257310020330 Q-loop/lid; other site 257310020331 ABC transporter signature motif; other site 257310020332 Walker B; other site 257310020333 D-loop; other site 257310020334 H-loop/switch region; other site 257310020335 NIL domain; Region: NIL; pfam09383 257310020336 HMMPfam hit to PF00005, DE ABC transporter score 8.8e-70 257310020337 PS00211 ABC transporters family signature. 257310020338 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020339 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 257310020340 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 257310020341 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 257310020342 active site 257310020343 catalytic site [active] 257310020344 HMMPfam hit to PF01055, DE Glycosyl hydrolases family 31, score 1.4e-10 257310020345 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 257310020346 Uncharacterized conserved protein [Function unknown]; Region: COG4121 257310020347 Signal peptide predicted for BB4174 by SignalP 2.0 HMM (Signal peptide probabilty 0.785) with cleavage site probability 0.628 between residues 29 and 30; signal peptide 257310020348 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 257310020349 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 257310020350 active site 257310020351 dimerization interface [polypeptide binding]; other site 257310020352 HMMPfam hit to PF00459, DE Inositol monophosphatase family, score 5.9e-73 257310020353 PS00629 Inositol monophosphatase family signature 1. 257310020354 PS00630 Inositol monophosphatase family signature 2. 257310020355 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 257310020356 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310020357 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 257310020358 acyl-activating enzyme (AAE) consensus motif; other site 257310020359 putative AMP binding site [chemical binding]; other site 257310020360 putative active site [active] 257310020361 putative CoA binding site [chemical binding]; other site 257310020362 HMMPfam hit to PF00501, DE AMP-binding protein, score 8.9e-123 257310020363 PS00455 AMP-binding domain signature. 257310020364 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 257310020365 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 257310020366 metal binding site [ion binding]; metal-binding site 257310020367 putative dimer interface [polypeptide binding]; other site 257310020368 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 3.5e-81 257310020369 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310020370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310020371 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 257310020372 putative dimerization interface [polypeptide binding]; other site 257310020373 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.9e-45 257310020374 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.7e-19 257310020375 Predicted membrane protein [Function unknown]; Region: COG2855 257310020376 HMMPfam hit to PF03601, DE Conserved hypothetical protein 698, score 1.2e-108 257310020377 10 probable transmembrane helices predicted for BB4178 by TMHMM2.0 at aa 13-35, 50-69, 76-98, 108-127, 139-161, 171-193, 209-231, 241-260, 273-292 and 296-318 257310020378 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020379 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 257310020380 HMMPfam hit to PF01662, DE Cytosolic long-chain acyl-CoA thioester hydrolase, score 4e-31 257310020381 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310020382 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 257310020383 MgtE intracellular N domain; Region: MgtE_N; smart00924 257310020384 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 257310020385 Divalent cation transporter; Region: MgtE; pfam01769 257310020386 HMMPfam hit to PF03448, DE MgtE intracellular domain, score 2e-20 257310020387 HMMPfam hit to PF00571, DE CBS domain, score 0.022 257310020388 HMMPfam hit to PF00571, DE CBS domain, score 3.8e-09 257310020389 4 probable transmembrane helices predicted for BB4180 by TMHMM2.0 at aa 350-372, 401-423, 428-450 and 463-485 257310020390 HMMPfam hit to PF01769, DE Divalent cation transporter score 7.2e-07 257310020391 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 257310020392 Signal peptide predicted for BB4181 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 21 and 22; signal peptide 257310020393 1 probable transmembrane helix predicted for BB4181 by TMHMM2.0 at aa 7-29 257310020394 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020395 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 257310020396 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 257310020397 putative active site pocket [active] 257310020398 dimerization interface [polypeptide binding]; other site 257310020399 putative catalytic residue [active] 257310020400 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310020401 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310020402 putative DNA binding site [nucleotide binding]; other site 257310020403 putative Zn2+ binding site [ion binding]; other site 257310020404 AsnC family; Region: AsnC_trans_reg; pfam01037 257310020405 HMMPfam hit to PF01037, DE AsnC family, score 2.1e-42 257310020406 PS00519 Bacterial regulatory proteins, asnC family signature. 257310020407 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 257310020408 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257310020409 short chain dehydrogenase; Provisional; Region: PRK08339 257310020410 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 257310020411 putative NAD(P) binding site [chemical binding]; other site 257310020412 putative active site [active] 257310020413 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.2e-36 257310020414 Signal peptide predicted for BB4186 by SignalP 2.0 HMM (Signal peptide probabilty 0.694) with cleavage site probability 0.360 between residues 29 and 30; signal peptide 257310020415 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 257310020416 Signal peptide predicted for BB4187 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 28 and 29; signal peptide 257310020417 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310020418 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7.3e-85 257310020419 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020420 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 257310020421 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 257310020422 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 257310020423 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 257310020424 nucleotide binding region [chemical binding]; other site 257310020425 ATP-binding site [chemical binding]; other site 257310020426 SEC-C motif; Region: SEC-C; pfam02810 257310020427 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02810, DE SEC-C motif, score 1.4e-09 257310020428 PS01312 Protein secA signatures. 257310020429 HMMPfam hit to PF01043, DE SecA protein, amino terminal region, score 2.1e-300 257310020430 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 257310020431 Peptidase family M23; Region: Peptidase_M23; pfam01551 257310020432 HMMPfam hit to PF01551, DE Peptidase family M23/M37, score 3.6e-36 257310020433 1 probable transmembrane helix predicted for BB4190 by TMHMM2.0 at aa 13-35 257310020434 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 257310020435 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 257310020436 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 257310020437 HMMPfam hit to PF03331, DE UDP-3-O-acyl N-acetylglycosamine deacetylase, score 5.4e-137 257310020438 cell division protein FtsZ; Validated; Region: PRK09330 257310020439 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 257310020440 nucleotide binding site [chemical binding]; other site 257310020441 SulA interaction site; other site 257310020442 HMMPfam hit to PF03953, DE Tubulin/FtsZ family, C-terminal domain, score 5.8e-29 257310020443 HMMPfam hit to PF00091, DE Tubulin/FtsZ family, GTPase domain, score 7.7e-78 257310020444 cell division protein FtsA; Region: ftsA; TIGR01174 257310020445 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 257310020446 nucleotide binding site [chemical binding]; other site 257310020447 Cell division protein FtsA; Region: FtsA; pfam14450 257310020448 HMMPfam hit to PF02491, DE Cell division protein FtsA, score 2.7e-52 257310020449 HMMPfam hit to PF02491, DE Cell division protein FtsA, score 4.1e-59 257310020450 Signal peptide predicted for BB4195 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.975 between residues 31 and 32; signal peptide 257310020451 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 257310020452 Cell division protein FtsQ; Region: FtsQ; pfam03799 257310020453 HMMPfam hit to PF03799, DE Cell division protein FtsQ, score 3.8e-17 257310020454 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 257310020455 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 257310020456 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257310020457 HMMPfam hit to PF01820, DE D-ala D-ala ligase, score 2.9e-113 257310020458 PS00843 D-alanine--D-alanine ligase signature 1. 257310020459 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 257310020460 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 257310020461 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257310020462 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257310020463 HMMPfam hit to PF02875, DE Mur ligase family, glutamate ligase domain, score 3e-20 257310020464 HMMPfam hit to PF01225, DE Mur ligase family, catalytic domain, score 1.6e-63 257310020465 Signal peptide predicted for BB4198 by SignalP 2.0 HMM (Signal peptide probabilty 0.819) with cleavage site probability 0.760 between residues 24 and 25; signal peptide 257310020466 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 257310020467 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 257310020468 active site 257310020469 homodimer interface [polypeptide binding]; other site 257310020470 HMMPfam hit to PF03033, DE Glycosyltransferase family 28 N-terminal domain, score 2.2e-92 257310020471 Signal peptide predicted for BB4199 by SignalP 2.0 HMM (Signal peptide probabilty 0.963) with cleavage site probability 0.945 between residues 51 and 52; signal peptide 257310020472 cell division protein FtsW; Region: ftsW; TIGR02614 257310020473 HMMPfam hit to PF01098, DE Cell cycle protein, score 4e-112 257310020474 10 probable transmembrane helices predicted for BB4199 by TMHMM2.0 at aa 28-50, 65-87, 94-113, 123-145, 157-179, 183-202, 209-227, 295-314, 327-345 and 360-382 257310020475 Signal peptide predicted for BB4200 by SignalP 2.0 HMM (Signal peptide probabilty 0.785) with cleavage site probability 0.590 between residues 27 and 28; signal peptide 257310020476 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 257310020477 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257310020478 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257310020479 HMMPfam hit to PF02875, DE Mur ligase family, glutamate ligase domain, score 1.4e-10 257310020480 HMMPfam hit to PF01225, DE Mur ligase family, catalytic domain, score 2.6e-32 257310020481 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310020482 PS01011 Folylpolyglutamate synthase signature 1. 257310020483 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 257310020484 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 257310020485 Mg++ binding site [ion binding]; other site 257310020486 putative catalytic motif [active] 257310020487 putative substrate binding site [chemical binding]; other site 257310020488 10 probable transmembrane helices predicted for BB4201 by TMHMM2.0 at aa 12-34, 59-78, 85-102, 122-144, 174-196, 211-233, 240-262, 272-294, 299-321 and 355-374 257310020489 HMMPfam hit to PF00953, DE Glycosyl transferase, score 4.1e-51 257310020490 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 257310020491 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 257310020492 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257310020493 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257310020494 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 257310020495 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257310020496 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257310020497 HMMPfam hit to PF02875, DE Mur ligase family, glutamate ligase domain, score 1.6e-13 257310020498 HMMPfam hit to PF01225, DE Mur ligase family, catalytic domain, score 8.1e-46 257310020499 HMMPfam hit to PF02875, DE Mur ligase family, glutamate ligase domain, score 1.3e-27 257310020500 HMMPfam hit to PF01225, DE Mur ligase family, catalytic domain, score 4.2e-52 257310020501 PS01011 Folylpolyglutamate synthase signature 1. 257310020502 Signal peptide predicted for BB4203 by SignalP 2.0 HMM (Signal peptide probabilty 0.622) with cleavage site probability 0.465 between residues 29 and 30; signal peptide 257310020503 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 257310020504 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 257310020505 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 257310020506 HMMPfam hit to PF00905, DE Penicillin binding protein transpeptidase domain, score 1.3e-100 257310020507 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020508 HMMPfam hit to PF03717, DE Penicillin-binding Protein dimerisation domain, score 7.2e-48 257310020509 cell division protein FtsL; Region: ftsL_broad; TIGR02209 257310020510 Signal peptide predicted for BB4204 by SignalP 2.0 HMM (Signal peptide probabilty 0.993) with cleavage site probability 0.325 between residues 23 and 24; signal peptide 257310020511 MraW methylase family; Region: Methyltransf_5; cl17771 257310020512 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 257310020513 HMMPfam hit to PF01795, DE MraW methylase family, score 1.3e-123 257310020514 cell division protein MraZ; Reviewed; Region: PRK00326 257310020515 MraZ protein; Region: MraZ; pfam02381 257310020516 MraZ protein; Region: MraZ; pfam02381 257310020517 HMMPfam hit to PF02381, DE Domain of unknown function UPF0040 family, score 2.6e-05 257310020518 HMMPfam hit to PF02381, DE Domain of unknown function UPF0040 family, score 4.7e-10 257310020519 ABC transporter ATPase component; Reviewed; Region: PRK11147 257310020520 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310020521 ABC transporter; Region: ABC_tran_2; pfam12848 257310020522 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 257310020523 HMMPfam hit to PF00005, DE ABC transporter score 6.8e-52 257310020524 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020525 PS00211 ABC transporters family signature. 257310020526 HMMPfam hit to PF00005, DE ABC transporter score 3.6e-39 257310020527 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020528 PS00211 ABC transporters family signature. 257310020529 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 257310020530 active site 257310020531 substrate binding pocket [chemical binding]; other site 257310020532 dimer interface [polypeptide binding]; other site 257310020533 PS00483 Dihydroorotase signature 2. 257310020534 PS00482 Dihydroorotase signature 1. 257310020535 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 257310020536 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 257310020537 metal binding site [ion binding]; metal-binding site 257310020538 putative dimer interface [polypeptide binding]; other site 257310020539 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 3e-77 257310020540 SWI complex, BAF60b domains; Region: SWIB; smart00151 257310020541 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02201, DE BAF60b domain of the SWIB complex, score 2.6e-37 257310020542 Predicted membrane protein [Function unknown]; Region: COG3671 257310020543 2 probable transmembrane helices predicted for BB4211 by TMHMM2.0 at aa 36-58 and 79-111 257310020544 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 257310020545 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310020546 dimerization interface [polypeptide binding]; other site 257310020547 putative DNA binding site [nucleotide binding]; other site 257310020548 putative Zn2+ binding site [ion binding]; other site 257310020549 AsnC family; Region: AsnC_trans_reg; pfam01037 257310020550 HMMPfam hit to PF01037, DE AsnC family, score 2.9e-37 257310020551 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 257310020552 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 257310020553 dimer interface [polypeptide binding]; other site 257310020554 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 257310020555 active site 257310020556 Fe binding site [ion binding]; other site 257310020557 HMMPfam hit to PF00903, DE Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily, score 4.7e-06 257310020558 methionine sulfoxide reductase A; Provisional; Region: PRK14054 257310020559 HMMPfam hit to PF01625, DE Peptide methionine sulfoxide reductase, score 1.7e-65 257310020560 Signal peptide predicted for BB4215 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.965 between residues 21 and 22; signal peptide 257310020561 Cytochrome c; Region: Cytochrom_C; cl11414 257310020562 HMMPfam hit to PF00034, DE Cytochrome c, score 4.9e-14 257310020563 PS00190 Cytochrome c family heme-binding site signature. 257310020564 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 257310020565 HMMPfam hit to PF00920, DE Dehydratase family, score 7.2e-286 257310020566 PS00886 Dihydroxy-acid and 6-phosphogluconate dehydratases signature 1. 257310020567 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 257310020568 HMMPfam hit to PF01790, DE Prolipoprotein diacylglyceryl transferase, score 3e-100 257310020569 7 probable transmembrane helices predicted for BB4217 by TMHMM2.0 at aa 15-37, 57-76, 91-113, 120-142, 176-193, 200-218 and 233-255 257310020570 PS01311 Prolipoprotein diacylglyceryl transferase signature. 257310020571 Signal peptide predicted for BB4218 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.990 between residues 30 and 31; signal peptide 257310020572 Protein of unknown function (DUF541); Region: SIMPL; cl01077 257310020573 Cell division protein ZapA; Region: ZapA; pfam05164 257310020574 Signal peptide predicted for BB4221 by SignalP 2.0 HMM (Signal peptide probabilty 0.814) with cleavage site probability 0.534 between residues 28 and 29; signal peptide 257310020575 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 257310020576 5 probable transmembrane helices predicted for BB4221 by TMHMM2.0 at aa 9-26, 41-63, 76-93, 97-118 and 125-147 257310020577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 257310020578 HMMPfam hit to PF01970, DE Integral membrane protein DUF112, score 9.2e-118 257310020579 11 probable transmembrane helices predicted for BB4222 by TMHMM2.0 at aa 20-42, 47-69, 73-95, 108-130, 145-162, 169-191, 206-223, 317-339, 359-381, 386-408 and 464-486 257310020580 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310020581 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 257310020582 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 257310020583 HMMPfam hit to PF01019, DE Gamma-glutamyltranspeptidase, score 2.2e-157 257310020584 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 257310020585 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 257310020586 HMMPfam hit to PF03446, DE NAD binding domain of 6-phosphogluconate dehydrogenase, score 1.1e-05 257310020587 PS00895 3-hydroxyisobutyrate dehydrogenase signature. 257310020588 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 257310020589 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 257310020590 HMMPfam hit to PF02525, DE Flavodoxin-like fold, score 8.1e-47 257310020591 LysR family transcriptional regulator; Provisional; Region: PRK14997 257310020592 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310020593 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 257310020594 putative effector binding pocket; other site 257310020595 putative dimerization interface [polypeptide binding]; other site 257310020596 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 5.4e-22 257310020597 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7.7e-46 257310020598 Tir chaperone protein (CesT) family; Region: CesT; cl08444 257310020599 Protein of unknown function (DUF3120); Region: DUF3220; pfam11516 257310020600 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 257310020601 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257310020602 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310020603 dimer interface [polypeptide binding]; other site 257310020604 phosphorylation site [posttranslational modification] 257310020605 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310020606 ATP binding site [chemical binding]; other site 257310020607 Mg2+ binding site [ion binding]; other site 257310020608 G-X-G motif; other site 257310020609 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 4.3e-28 257310020610 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 1e-10 257310020611 1 probable transmembrane helix predicted for BB4229 by TMHMM2.0 at aa 5-24 257310020612 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 257310020613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310020614 active site 257310020615 phosphorylation site [posttranslational modification] 257310020616 intermolecular recognition site; other site 257310020617 dimerization interface [polypeptide binding]; other site 257310020618 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310020619 DNA binding site [nucleotide binding] 257310020620 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 2.6e-11 257310020621 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 8.7e-21 257310020622 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 257310020623 putative active site [active] 257310020624 Ap4A binding site [chemical binding]; other site 257310020625 nudix motif; other site 257310020626 putative metal binding site [ion binding]; other site 257310020627 HMMPfam hit to PF00293, DE NUDIX domain, score 1.3e-22 257310020628 PS00893 mutT domain signature. 257310020629 PS00659 Glycosyl hydrolases family 5 signature. 257310020630 prolyl-tRNA synthetase; Provisional; Region: PRK09194 257310020631 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 257310020632 dimer interface [polypeptide binding]; other site 257310020633 motif 1; other site 257310020634 active site 257310020635 motif 2; other site 257310020636 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 257310020637 putative deacylase active site [active] 257310020638 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 257310020639 active site 257310020640 motif 3; other site 257310020641 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 257310020642 anticodon binding site; other site 257310020643 HMMPfam hit to PF00587, DE tRNA synthetase class II core domain (G, H, P, S and T), score 2.1e-57 257310020644 PS00179 Aminoacyl-transfer RNA synthetases class-II signature 1. 257310020645 HMMPfam hit to PF03129, DE Anticodon binding domain, score 7.4e-26 257310020646 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 257310020647 active site 257310020648 HMMPfam hit to PF03061, DE 4-hydroxybenzoyl-CoA thioesterase, score 3.1e-38 257310020649 TolQ protein; Region: tolQ; TIGR02796 257310020650 3 probable transmembrane helices predicted for BB4234 by TMHMM2.0 at aa 20-39, 132-154 and 174-196 257310020651 HMMPfam hit to PF01618, DE MotA/TolQ/ExbB proton channel family, score 2.4e-49 257310020652 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 257310020653 TolR protein; Region: tolR; TIGR02801 257310020654 HMMPfam hit to PF02472, DE Biopolymer transport protein ExbD/TolR, score 5.8e-18 257310020655 1 probable transmembrane helix predicted for BB4235 by TMHMM2.0 at aa 20-42 257310020656 TolA protein; Region: tolA_full; TIGR02794 257310020657 TonB C terminal; Region: TonB_2; pfam13103 257310020658 1 probable transmembrane helix predicted for BB4236 by TMHMM2.0 at aa 24-43 257310020659 translocation protein TolB; Provisional; Region: tolB; PRK02889 257310020660 Signal peptide predicted for BB4237 by SignalP 2.0 HMM (Signal peptide probabilty 0.980) with cleavage site probability 0.974 between residues 39 and 40; signal peptide 257310020661 TolB amino-terminal domain; Region: TolB_N; pfam04052 257310020662 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 257310020663 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 257310020664 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 257310020665 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 257310020666 Signal peptide predicted for BB4238 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.348 between residues 26 and 27; signal peptide 257310020667 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 257310020668 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 257310020669 ligand binding site [chemical binding]; other site 257310020670 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020671 HMMPfam hit to PF00691, DE OmpA family, score 1.8e-31 257310020672 PS01068 OmpA-like domain. 257310020673 Signal peptide predicted for BB4239 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.506 between residues 30 and 31; signal peptide 257310020674 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 257310020675 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 257310020676 binding surface 257310020677 TPR motif; other site 257310020678 Signal peptide predicted for BB4240 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.749 between residues 35 and 36; signal peptide 257310020679 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 257310020680 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 257310020681 ABC-ATPase subunit interface; other site 257310020682 dimer interface [polypeptide binding]; other site 257310020683 putative PBP binding regions; other site 257310020684 9 probable transmembrane helices predicted for BB4240 by TMHMM2.0 at aa 21-43, 71-90, 103-125, 129-151, 164-186, 208-230, 260-282, 295-314 and 321-343 257310020685 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020686 HMMPfam hit to PF01032, DE FecCD transport family, score 8.6e-81 257310020687 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 257310020688 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 257310020689 Walker A/P-loop; other site 257310020690 ATP binding site [chemical binding]; other site 257310020691 Q-loop/lid; other site 257310020692 ABC transporter signature motif; other site 257310020693 Walker B; other site 257310020694 D-loop; other site 257310020695 H-loop/switch region; other site 257310020696 HMMPfam hit to PF00005, DE ABC transporter score 8.6e-48 257310020697 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020698 PS00211 ABC transporters family signature. 257310020699 Signal peptide predicted for BB4242 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.993 between residues 29 and 30; signal peptide 257310020700 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310020701 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.5e-80 257310020702 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310020703 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 257310020704 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 257310020705 HMMPfam hit to PF01019, DE Gamma-glutamyltranspeptidase, score 8.3e-151 257310020706 Transcriptional regulators [Transcription]; Region: MarR; COG1846 257310020707 MarR family; Region: MarR_2; pfam12802 257310020708 HMMPfam hit to PF01047, DE MarR family, score 9.7e-16 257310020709 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 257310020710 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257310020711 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 257310020712 putative deacylase active site [active] 257310020713 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310020714 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 257310020715 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 257310020716 catalytic site [active] 257310020717 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 1.9e-08 257310020718 Signal peptide predicted for BB4248 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.750 between residues 28 and 29; signal peptide 257310020719 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310020720 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-75 257310020721 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 257310020722 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 257310020723 acyl-activating enzyme (AAE) consensus motif; other site 257310020724 putative AMP binding site [chemical binding]; other site 257310020725 putative active site [active] 257310020726 putative CoA binding site [chemical binding]; other site 257310020727 HMMPfam hit to PF00501, DE AMP-binding protein, score 1.2e-95 257310020728 PS00455 AMP-binding domain signature. 257310020729 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 257310020730 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 257310020731 dimer interface [polypeptide binding]; other site 257310020732 active site 257310020733 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 5e-51 257310020734 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 1.1e-104 257310020735 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310020736 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 6.3e-06 257310020737 PS00372 PTS EIIA domains phosphorylation site signature 2. 257310020738 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 257310020739 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310020740 active site 257310020741 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 4.9e-11 257310020742 PS00237 G-protein coupled receptors signature. 257310020743 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 0.00021 257310020744 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 257310020745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310020746 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 257310020747 dimerization interface [polypeptide binding]; other site 257310020748 substrate binding pocket [chemical binding]; other site 257310020749 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 7.5e-23 257310020750 PS00044 Bacterial regulatory proteins, lysR family signature. 257310020751 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.1e-43 257310020752 Signal peptide predicted for BB4254 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.873 between residues 24 and 25; signal peptide 257310020753 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310020754 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4.4e-85 257310020755 enoyl-CoA hydratase; Provisional; Region: PRK09245 257310020756 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310020757 substrate binding site [chemical binding]; other site 257310020758 oxyanion hole (OAH) forming residues; other site 257310020759 trimer interface [polypeptide binding]; other site 257310020760 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3.9e-50 257310020761 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310020762 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310020763 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 3.6e-24 257310020764 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 257310020765 7 probable transmembrane helices predicted for BB4257 by TMHMM2.0 at aa 15-37, 58-76, 86-103, 123-145, 160-182, 189-208 and 218-237 257310020766 HMMPfam hit to PF03741, DE Integral membrane protein TerC family, score 6e-89 257310020767 PS00030 Eukaryotic RNA-binding region RNP-1 signature. 257310020768 MgtC family; Region: MgtC; pfam02308 257310020769 HMMPfam hit to PF02308, DE MgtC family, score 3.2e-50 257310020770 4 probable transmembrane helices predicted for BB4258 by TMHMM2.0 at aa 54-76, 86-105, 112-131 and 135-154 257310020771 elongation factor G; Reviewed; Region: PRK00007 257310020772 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 257310020773 G1 box; other site 257310020774 putative GEF interaction site [polypeptide binding]; other site 257310020775 GTP/Mg2+ binding site [chemical binding]; other site 257310020776 Switch I region; other site 257310020777 G2 box; other site 257310020778 G3 box; other site 257310020779 Switch II region; other site 257310020780 G4 box; other site 257310020781 G5 box; other site 257310020782 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 257310020783 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 257310020784 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 257310020785 HMMPfam hit to PF00679, DE Elongation factor G C-terminus, score 6.5e-48 257310020786 HMMPfam hit to PF03764, DE Elongation factor G, domain IV, score 1.8e-68 257310020787 HMMPfam hit to PF03144, DE Elongation factor Tu domain 2, score 4.1e-24 257310020788 HMMPfam hit to PF00009, DE Elongation factor Tu GTP binding domain, score 2.5e-109 257310020789 PS00301 GTP-binding elongation factors signature. 257310020790 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020791 Signal peptide predicted for BB4260 by SignalP 2.0 HMM (Signal peptide probabilty 0.937) with cleavage site probability 0.856 between residues 18 and 19; signal peptide 257310020792 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 257310020793 Ligand Binding Site [chemical binding]; other site 257310020794 HMMPfam hit to PF00582, DE Universal stress protein family, score 2.1e-15 257310020795 Putative phosphatase (DUF442); Region: DUF442; cl17385 257310020796 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 257310020797 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310020798 DNA-binding site [nucleotide binding]; DNA binding site 257310020799 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310020800 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310020801 homodimer interface [polypeptide binding]; other site 257310020802 catalytic residue [active] 257310020803 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 3.2e-16 257310020804 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310020805 EamA-like transporter family; Region: EamA; pfam00892 257310020806 10 probable transmembrane helices predicted for BB4263 by TMHMM2.0 at aa 22-44, 48-70, 83-102, 106-128, 135-154, 164-183, 190-212, 222-244, 251-273 and 278-295 257310020807 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 2.3e-08 257310020808 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 1.3e-10 257310020809 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 257310020810 5 probable transmembrane helices predicted for BB4264 by TMHMM2.0 at aa 12-34, 54-76, 83-102, 156-178 and 191-210 257310020811 HMMPfam hit to PF01810, DE LysE type translocator, score 0.0014 257310020812 Signal peptide predicted for BB4265 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.341 between residues 31 and 32; signal peptide 257310020813 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 257310020814 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 257310020815 Signal peptide predicted for BB4266 by SignalP 2.0 HMM (Signal peptide probabilty 0.993) with cleavage site probability 0.988 between residues 37 and 38; signal peptide 257310020816 Predicted membrane protein [Function unknown]; Region: COG4125 257310020817 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 257310020818 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 257310020819 4 probable transmembrane helices predicted for BB4266 by TMHMM2.0 at aa 16-38, 48-67, 87-109 and 113-135 257310020820 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 257310020821 putative active site [active] 257310020822 YdjC motif; other site 257310020823 Mg binding site [ion binding]; other site 257310020824 putative homodimer interface [polypeptide binding]; other site 257310020825 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 257310020826 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 257310020827 9 probable transmembrane helices predicted for BB4268 by TMHMM2.0 at aa 21-43, 99-121, 128-150, 192-214, 226-248, 277-299, 312-331, 336-358 and 371-393 257310020828 HMMPfam hit to PF02366, DE Dolichyl-phosphate-mannose-protein mannosyltransferase, score 2.4e-14 257310020829 Signal peptide predicted for BB4269 by SignalP 2.0 HMM (Signal peptide probabilty 0.931) with cleavage site probability 0.423 between residues 30 and 31; signal peptide 257310020830 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 257310020831 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 257310020832 Ligand binding site; other site 257310020833 Putative Catalytic site; other site 257310020834 DXD motif; other site 257310020835 2 probable transmembrane helices predicted for BB4269 by TMHMM2.0 at aa 262-284 and 299-321 257310020836 HMMPfam hit to PF00535, DE Glycosyl transferase, score 2e-32 257310020837 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 2.9e-10 257310020838 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 257310020839 HMMPfam hit to PF03616, DE Sodium/glutamate symporter, score 1.1e-103 257310020840 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020841 12 probable transmembrane helices predicted for BB4271 by TMHMM2.0 at aa 7-29, 39-58, 70-87, 97-119, 124-146, 161-183, 216-238, 248-267, 274-293, 303-325, 332-354 and 378-400 257310020842 Signal peptide predicted for BB4272 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.619 between residues 22 and 23; signal peptide 257310020843 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 257310020844 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020845 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 257310020846 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02667, DE Short chain fatty acid transporter score 5.2e-178 257310020847 11 probable transmembrane helices predicted for BB4273 by TMHMM2.0 at aa 21-38, 53-75, 87-106, 110-127, 139-161, 181-203, 242-261, 265-284, 296-318, 333-355 and 415-434 257310020848 PS00095 C-5 cytosine-specific DNA methylases C-terminal signature. 257310020849 2 probable transmembrane helices predicted for BB4274 by TMHMM2.0 at aa 5-25 and 32-54 257310020850 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 257310020851 active site 257310020852 catalytic site [active] 257310020853 substrate binding site [chemical binding]; other site 257310020854 PS01258 Apoptosis regulator, Bcl-2 family BH2 domain signature. 257310020855 HMMPfam hit to PF00929, DE Exonuclease, score 6.5e-37 257310020856 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 257310020857 HMMPfam hit to PF00873, DE AcrB/AcrD/AcrF family, score 0 257310020858 12 probable transmembrane helices predicted for BB4276 by TMHMM2.0 at aa 12-34, 330-352, 359-378, 388-410, 430-452, 467-489, 523-545, 845-867, 874-896, 900-922, 943-965 and 980-1002 257310020859 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020860 Signal peptide predicted for BB4277 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.484 between residues 18 and 19; signal peptide 257310020861 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 257310020862 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257310020863 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310020864 HMMPfam hit to PF00529, DE hemolysin D, score 7.2e-19 257310020865 1 probable transmembrane helix predicted for BB4277 by TMHMM2.0 at aa 5-27 257310020866 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 257310020867 RNA/DNA hybrid binding site [nucleotide binding]; other site 257310020868 active site 257310020869 HMMPfam hit to PF00075, DE RNase H, score 4.1e-60 257310020870 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 257310020871 HMMPfam hit to PF00753, DE Metallo-beta-lactamase superfamily, score 5.7e-41 257310020872 Signal peptide predicted for BB4281 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.333 between residues 27 and 28; signal peptide 257310020873 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 257310020874 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 257310020875 N-acetyl-D-glucosamine binding site [chemical binding]; other site 257310020876 catalytic residue [active] 257310020877 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 257310020878 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 257310020879 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 257310020880 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020881 HMMPfam hit to PF01464, DE Transglycosylase SLT domain, score 3.4e-22 257310020882 PS00922 Prokaryotic transglycosylases signature. 257310020883 HMMPfam hit to PF01476, DE LysM domain, score 6.4e-08 257310020884 HMMPfam hit to PF01476, DE LysM domain, score 2.3e-15 257310020885 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 257310020886 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 257310020887 NAD binding site [chemical binding]; other site 257310020888 homotetramer interface [polypeptide binding]; other site 257310020889 homodimer interface [polypeptide binding]; other site 257310020890 substrate binding site [chemical binding]; other site 257310020891 active site 257310020892 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 4.2e-14 257310020893 OsmC-like protein; Region: OsmC; pfam02566 257310020894 HMMPfam hit to PF02566, DE OsmC-like protein, score 7.3e-16 257310020895 Protein of unknown function (DUF533); Region: DUF533; pfam04391 257310020896 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 257310020897 putative metal binding site [ion binding]; other site 257310020898 2 probable transmembrane helices predicted for BB4284 by TMHMM2.0 at aa 34-56 and 66-83 257310020899 Signal peptide predicted for BB4285 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.753 between residues 21 and 22; signal peptide 257310020900 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310020901 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-88 257310020902 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 257310020903 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 257310020904 dimerization interface [polypeptide binding]; other site 257310020905 active site 257310020906 HMMPfam hit to PF01729, DE Quinolinate phosphoribosyl transferase, C-terminal domain, score 2.9e-80 257310020907 HMMPfam hit to PF02749, DE Quinolinate phosphoribosyl transferase, N-terminal domain, score 4.2e-34 257310020908 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 257310020909 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 257310020910 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 257310020911 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 257310020912 alpha subunit interface [polypeptide binding]; other site 257310020913 active site 257310020914 substrate binding site [chemical binding]; other site 257310020915 Fe binding site [ion binding]; other site 257310020916 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 4.1e-16 257310020917 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310020918 TM-ABC transporter signature motif; other site 257310020919 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 5.6e-29 257310020920 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310020921 7 probable transmembrane helices predicted for BB4292 by TMHMM2.0 at aa 7-29, 56-78, 90-112, 139-158, 189-211, 226-248 and 253-275 257310020922 Signal peptide predicted for BB4293 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.426 between residues 20 and 21; signal peptide 257310020923 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310020924 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310020925 TM-ABC transporter signature motif; other site 257310020926 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 6.9e-07 257310020927 8 probable transmembrane helices predicted for BB4293 by TMHMM2.0 at aa 22-44, 51-68, 78-100, 107-126, 146-168, 205-227, 242-264 and 271-293 257310020928 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310020929 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310020930 Walker A/P-loop; other site 257310020931 ATP binding site [chemical binding]; other site 257310020932 Q-loop/lid; other site 257310020933 ABC transporter signature motif; other site 257310020934 Walker B; other site 257310020935 D-loop; other site 257310020936 H-loop/switch region; other site 257310020937 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310020938 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310020939 Walker A/P-loop; other site 257310020940 ATP binding site [chemical binding]; other site 257310020941 Q-loop/lid; other site 257310020942 ABC transporter signature motif; other site 257310020943 Walker B; other site 257310020944 D-loop; other site 257310020945 H-loop/switch region; other site 257310020946 HMMPfam hit to PF00005, DE ABC transporter score 1.5e-45 257310020947 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020948 HMMPfam hit to PF00005, DE ABC transporter score 8.5e-48 257310020949 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020950 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 257310020951 Signal peptide predicted for BB4296 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.797 between residues 22 and 23; signal peptide 257310020952 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310020953 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 257310020954 putative ligand binding site [chemical binding]; other site 257310020955 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310020956 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310020957 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 257310020958 putative substrate binding pocket [chemical binding]; other site 257310020959 dimerization interface [polypeptide binding]; other site 257310020960 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 7.6e-36 257310020961 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.4e-19 257310020962 PS00044 Bacterial regulatory proteins, lysR family signature. 257310020963 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 257310020964 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 257310020965 NAD(P) binding site [chemical binding]; other site 257310020966 HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 0.0045 257310020967 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257310020968 Amidase; Region: Amidase; cl11426 257310020969 HMMPfam hit to PF01425, DE Amidase, score 1.1e-80 257310020970 PS00017 ATP/GTP-binding site motif A (P-loop). 257310020971 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 257310020972 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 257310020973 FMN-binding pocket [chemical binding]; other site 257310020974 flavin binding motif; other site 257310020975 phosphate binding motif [ion binding]; other site 257310020976 beta-alpha-beta structure motif; other site 257310020977 NAD binding pocket [chemical binding]; other site 257310020978 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310020979 catalytic loop [active] 257310020980 iron binding site [ion binding]; other site 257310020981 HMMPfam hit to PF00970, DE Oxidoreductase FAD-binding domain, score 0.00027 257310020982 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 0.0028 257310020983 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 3.4e-08 257310020984 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310020985 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 257310020986 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 257310020987 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 257310020988 putative NADH binding site [chemical binding]; other site 257310020989 putative active site [active] 257310020990 nudix motif; other site 257310020991 putative metal binding site [ion binding]; other site 257310020992 HMMPfam hit to PF00293, DE NUDIX domain, score 4.9e-22 257310020993 PS00893 mutT domain signature. 257310020994 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310020995 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310020996 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 7.3e-15 257310020997 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310020998 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310020999 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 5e-28 257310021000 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 257310021001 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 257310021002 NAD(P) binding site [chemical binding]; other site 257310021003 HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 4e-80 257310021004 Signal peptide predicted for BB4305 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 22 and 23; signal peptide 257310021005 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 257310021006 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310021007 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 9.4e-77 257310021008 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310021009 enoyl-CoA hydratase; Provisional; Region: PRK06494 257310021010 substrate binding site [chemical binding]; other site 257310021011 oxyanion hole (OAH) forming residues; other site 257310021012 trimer interface [polypeptide binding]; other site 257310021013 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3.5e-44 257310021014 PS00166 enoyl-CoA hydratase signature. 257310021015 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310021016 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310021017 Walker A/P-loop; other site 257310021018 ATP binding site [chemical binding]; other site 257310021019 Q-loop/lid; other site 257310021020 ABC transporter signature motif; other site 257310021021 Walker B; other site 257310021022 D-loop; other site 257310021023 H-loop/switch region; other site 257310021024 HMMPfam hit to PF00005, DE ABC transporter score 1.8e-59 257310021025 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021026 PS00211 ABC transporters family signature. 257310021027 Signal peptide predicted for BB4308 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.688 between residues 25 and 26; signal peptide 257310021028 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 257310021029 NMT1/THI5 like; Region: NMT1; pfam09084 257310021030 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310021031 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310021032 dimer interface [polypeptide binding]; other site 257310021033 conserved gate region; other site 257310021034 putative PBP binding loops; other site 257310021035 ABC-ATPase subunit interface; other site 257310021036 6 probable transmembrane helices predicted for BB4309 by TMHMM2.0 at aa 13-35, 76-98, 111-133, 138-160, 191-213 and 228-250 257310021037 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.2e-11 257310021038 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310021039 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310021040 DNA-binding site [nucleotide binding]; DNA binding site 257310021041 UTRA domain; Region: UTRA; cl17743 257310021042 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.1e-12 257310021043 Signal peptide predicted for BB4311 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.991 between residues 30 and 31; signal peptide 257310021044 NMT1-like family; Region: NMT1_2; pfam13379 257310021045 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 257310021046 membrane-bound complex binding site; other site 257310021047 Signal peptide predicted for BB4312 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 28 and 29; signal peptide 257310021048 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310021049 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.9e-69 257310021050 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310021051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310021052 DNA-binding site [nucleotide binding]; DNA binding site 257310021053 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.7e-14 257310021054 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 257310021055 gating phenylalanine in ion channel; other site 257310021056 10 probable transmembrane helices predicted for BB4314 by TMHMM2.0 at aa 37-59, 74-96, 109-128, 138-160, 172-194, 199-221, 228-250, 260-277, 284-306 and 321-343 257310021057 HMMPfam hit to PF03595, DE C4-dicarboxylate transporter/malic acid transport protein, score 1.7e-35 257310021058 Sulfatase; Region: Sulfatase; cl17466 257310021059 HMMPfam hit to PF00884, DE Sulfatase, score 4.8e-27 257310021060 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021061 choline dehydrogenase; Validated; Region: PRK02106 257310021062 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 257310021063 HMMPfam hit to PF00732, DE GMC oxidoreductase, score 4e-206 257310021064 PS00623 GMC oxidoreductases signature 1. 257310021065 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 257310021066 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 257310021067 FMN-binding pocket [chemical binding]; other site 257310021068 flavin binding motif; other site 257310021069 phosphate binding motif [ion binding]; other site 257310021070 beta-alpha-beta structure motif; other site 257310021071 NAD binding pocket [chemical binding]; other site 257310021072 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310021073 catalytic loop [active] 257310021074 iron binding site [ion binding]; other site 257310021075 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 1.1e-06 257310021076 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310021077 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 3.3e-05 257310021078 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 257310021079 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 257310021080 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 257310021081 hydrophobic ligand binding site; other site 257310021082 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 2.7e-22 257310021083 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310021084 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 257310021085 tetramerization interface [polypeptide binding]; other site 257310021086 NAD(P) binding site [chemical binding]; other site 257310021087 catalytic residues [active] 257310021088 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 1.9e-142 257310021089 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 257310021090 HMMPfam hit to PF01495, DE HypB/UreG nucleotide-binding domain, score 4.5e-73 257310021091 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021092 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 257310021093 UreF; Region: UreF; pfam01730 257310021094 HMMPfam hit to PF01730, DE UreF, score 9.7e-74 257310021095 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 257310021096 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 257310021097 dimer interface [polypeptide binding]; other site 257310021098 catalytic residues [active] 257310021099 HMMPfam hit to PF02814, DE UreE urease accessory protein, score 1.7e-45 257310021100 urease subunit alpha; Reviewed; Region: ureC; PRK13207 257310021101 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 257310021102 subunit interactions [polypeptide binding]; other site 257310021103 active site 257310021104 flap region; other site 257310021105 HMMPfam hit to PF02802, DE Urease alpha-subunit, catalytic domain, score 0 257310021106 PS00145 Urease active site. 257310021107 PS01120 Urease nickel ligands signature. 257310021108 HMMPfam hit to PF00449, DE Urease alpha-subunit, N-terminal domain, score 4.8e-83 257310021109 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 257310021110 gamma-beta subunit interface [polypeptide binding]; other site 257310021111 alpha-beta subunit interface [polypeptide binding]; other site 257310021112 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00699, DE Urease beta subunit, score 3.2e-60 257310021113 Signal peptide predicted for BB4325 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 26 and 27; signal peptide 257310021114 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 257310021115 7 probable transmembrane helices predicted for BB4325 by TMHMM2.0 at aa 7-29, 44-66, 73-95, 100-117, 124-143, 153-175 and 182-204 257310021116 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 257310021117 alpha-gamma subunit interface [polypeptide binding]; other site 257310021118 beta-gamma subunit interface [polypeptide binding]; other site 257310021119 HMMPfam hit to PF00547, DE Urease, gamma subunit, score 9e-68 257310021120 UreD urease accessory protein; Region: UreD; cl00530 257310021121 HMMPfam hit to PF01774, DE UreD urease accessory protein, score 5e-95 257310021122 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310021123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310021124 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 257310021125 putative dimerization interface [polypeptide binding]; other site 257310021126 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 7.7e-20 257310021127 PS00044 Bacterial regulatory proteins, lysR family signature. 257310021128 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.1e-43 257310021129 Signal peptide predicted for BB4329 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.976 between residues 39 and 40; signal peptide 257310021130 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310021131 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.5e-58 257310021132 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310021133 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310021134 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.1e-67 257310021135 Signal peptide predicted for BB4331 by SignalP 2.0 HMM (Signal peptide probabilty 0.977) with cleavage site probability 0.749 between residues 18 and 19; signal peptide 257310021136 lipid-transfer protein; Provisional; Region: PRK07855 257310021137 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310021138 active site 257310021139 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310021140 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 257310021141 DUF35 OB-fold domain; Region: DUF35; pfam01796 257310021142 HMMPfam hit to PF01796, DE Domain of unknown function DUF35, score 7e-13 257310021143 putative CoA-transferase; Provisional; Region: PRK11430 257310021144 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310021145 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 7.4e-23 257310021146 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310021147 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310021148 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 2.4e-37 257310021149 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 257310021150 Amidohydrolase; Region: Amidohydro_2; pfam04909 257310021151 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 257310021152 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310021153 DNA-binding site [nucleotide binding]; DNA binding site 257310021154 UTRA domain; Region: UTRA; pfam07702 257310021155 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 4.4e-17 257310021156 PS00043 Bacterial regulatory proteins, gntR family signature. 257310021157 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 257310021158 dimer interface [polypeptide binding]; other site 257310021159 Methylaspartate ammonia-lyase C-terminus; Region: MAAL_C; pfam07476 257310021160 active site 257310021161 PS00626 Regulator of chromosome condensation (RCC1) signature 2. 257310021162 Signal peptide predicted for BB4338 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.931 between residues 34 and 35; signal peptide 257310021163 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310021164 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.1e-115 257310021165 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 257310021166 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 5.8e-41 257310021167 Signal peptide predicted for BB4340 by SignalP 2.0 HMM (Signal peptide probabilty 0.980) with cleavage site probability 0.896 between residues 31 and 32; signal peptide 257310021168 D-galactonate transporter; Region: 2A0114; TIGR00893 257310021169 11 probable transmembrane helices predicted for BB4340 by TMHMM2.0 at aa 9-26, 41-63, 70-92, 102-124, 131-153, 163-185, 225-247, 252-274, 287-319, 339-361 and 368-390 257310021170 SpoVR family protein; Provisional; Region: PRK11767 257310021171 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 257310021172 hypothetical protein; Provisional; Region: PRK05325 257310021173 PrkA family serine protein kinase; Provisional; Region: PRK15455 257310021174 AAA ATPase domain; Region: AAA_16; pfam13191 257310021175 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 257310021176 PS00107 Protein kinases ATP-binding region signature. 257310021177 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021178 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 257310021179 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 257310021180 catalytic motif [active] 257310021181 Zn binding site [ion binding]; other site 257310021182 RibD C-terminal domain; Region: RibD_C; cl17279 257310021183 HMMPfam hit to PF01872, DE RibD C-terminal domain, score 8.4e-56 257310021184 HMMPfam hit to PF00383, DE Cytidine and deoxycytidylate deaminase zinc-binding region, score 1.9e-31 257310021185 PS00903 Cytidine and deoxycytidylate deaminases zinc-binding region signature. 257310021186 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 257310021187 catalytic triad [active] 257310021188 conserved cis-peptide bond; other site 257310021189 HMMPfam hit to PF00857, DE Isochorismatase family, score 2e-05 257310021190 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 257310021191 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 257310021192 conserved cys residue [active] 257310021193 HMMPfam hit to PF01965, DE DJ-1/PfpI family, score 0.0053 257310021194 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.18 257310021195 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.0008 257310021196 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 257310021197 ATP cone domain; Region: ATP-cone; pfam03477 257310021198 HMMPfam hit to PF03477, DE ATP cone domain, score 3.1e-24 257310021199 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 257310021200 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 257310021201 dimer interface [polypeptide binding]; other site 257310021202 active site 257310021203 glycine-pyridoxal phosphate binding site [chemical binding]; other site 257310021204 folate binding site [chemical binding]; other site 257310021205 HMMPfam hit to PF00464, DE Serine hydroxymethyltransferase, score 3.1e-248 257310021206 PS00096 Serine hydroxymethyltransferase pyridoxal-phosphate attachment site. 257310021207 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 257310021208 substrate binding site [chemical binding]; other site 257310021209 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 257310021210 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 257310021211 active site 257310021212 HIGH motif; other site 257310021213 dimer interface [polypeptide binding]; other site 257310021214 KMSKS motif; other site 257310021215 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 257310021216 RNA binding surface [nucleotide binding]; other site 257310021217 HMMPfam hit to PF01479, DE S4 domain, score 4e-05 257310021218 HMMPfam hit to PF00579, DE tRNA synthetases class I (W and Y), score 2.6e-99 257310021219 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310021220 putative peptidase; Provisional; Region: PRK11649 257310021221 Peptidase family M23; Region: Peptidase_M23; pfam01551 257310021222 HMMPfam hit to PF01551, DE Peptidase family M23/M37, score 2.6e-38 257310021223 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 257310021224 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03702, DE Uncharacterised protein family (UPF0075), score 2.3e-176 257310021225 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 257310021226 HMMPfam hit to PF01521, DE HesB-like domain, score 2.4e-54 257310021227 PS01152 Hypothetical hesB/yadR/yfhF family signature. 257310021228 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 257310021229 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 257310021230 HMMPfam hit to PF02774, DE Semialdehyde dehydrogenase, dimerisation domain, score 6.4e-26 257310021231 HMMPfam hit to PF01118, DE Semialdehyde dehydrogenase, NAD binding domain, score 4.5e-42 257310021232 HMMPfam hit to PF01408, DE Oxidoreductase family, NAD-binding Rossmann fold, score 0.00095 257310021233 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 257310021234 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00380, DE Ribosomal protein S9/S16, score 1.6e-53 257310021235 PS00360 Ribosomal protein S9 signature. 257310021236 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 257310021237 23S rRNA interface [nucleotide binding]; other site 257310021238 L3 interface [polypeptide binding]; other site 257310021239 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00572, DE Ribosomal protein L13, score 5.2e-68 257310021240 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 257310021241 Signal peptide predicted for BB4358 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 27 and 28; signal peptide 257310021242 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 257310021243 HMMPfam hit to PF03480, DE Bacterial extracellular substrate-binding protein, family 7, score 6.6e-64 257310021244 peptidase PmbA; Provisional; Region: PRK11040 257310021245 HMMPfam hit to PF01523, DE modulator of DNA gyrase, score 1.2e-52 257310021246 hypothetical protein; Provisional; Region: PRK05255 257310021247 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 257310021248 putative hydrolase; Provisional; Region: PRK11460 257310021249 HMMPfam hit to PF02230, DE Phospholipase/Carboxylesterase, score 9.7e-65 257310021250 Signal peptide predicted for BB4362 by SignalP 2.0 HMM (Signal peptide probabilty 0.983) with cleavage site probability 0.937 between residues 39 and 40; signal peptide 257310021251 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 257310021252 NMT1/THI5 like; Region: NMT1; pfam09084 257310021253 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310021254 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310021255 Walker A/P-loop; other site 257310021256 ATP binding site [chemical binding]; other site 257310021257 Q-loop/lid; other site 257310021258 ABC transporter signature motif; other site 257310021259 Walker B; other site 257310021260 D-loop; other site 257310021261 H-loop/switch region; other site 257310021262 HMMPfam hit to PF00005, DE ABC transporter score 5.2e-61 257310021263 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021264 PS00211 ABC transporters family signature. 257310021265 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310021266 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310021267 dimer interface [polypeptide binding]; other site 257310021268 conserved gate region; other site 257310021269 putative PBP binding loops; other site 257310021270 ABC-ATPase subunit interface; other site 257310021271 6 probable transmembrane helices predicted for BB4364 by TMHMM2.0 at aa 34-53, 91-113, 126-145, 149-171, 215-237 and 247-269 257310021272 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.031 257310021273 Isochorismatase family; Region: Isochorismatase; pfam00857 257310021274 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 257310021275 catalytic triad [active] 257310021276 conserved cis-peptide bond; other site 257310021277 HMMPfam hit to PF00857, DE Isochorismatase family, score 6.3e-29 257310021278 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 257310021279 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310021280 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00903, DE Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily, score 9.1e-16 257310021281 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 257310021282 Signal peptide predicted for BB4367 by SignalP 2.0 HMM (Signal peptide probabilty 0.637) with cleavage site probability 0.489 between residues 32 and 33; signal peptide 257310021283 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 257310021284 ATP binding site [chemical binding]; other site 257310021285 Mg++ binding site [ion binding]; other site 257310021286 motif III; other site 257310021287 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 257310021288 nucleotide binding region [chemical binding]; other site 257310021289 ATP-binding site [chemical binding]; other site 257310021290 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 257310021291 putative RNA binding site [nucleotide binding]; other site 257310021292 HMMPfam hit to PF03880, DE DbpA RNA binding domain, score 2.5e-26 257310021293 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 9.3e-25 257310021294 HMMPfam hit to PF00270, DE DEAD/DEAH box helicase, score 1.1e-77 257310021295 PS00039 DEAD-box subfamily ATP-dependent helicases signature. 257310021296 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021297 13 probable transmembrane helices predicted for BB4368 by TMHMM2.0 at aa 7-29, 39-61, 68-85, 100-122, 135-157, 186-208, 268-287, 302-324, 337-359, 384-406, 413-435, 445-467 and 474-496 257310021298 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310021299 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310021300 DNA-binding site [nucleotide binding]; DNA binding site 257310021301 Transcriptional regulators [Transcription]; Region: FadR; COG2186 257310021302 FCD domain; Region: FCD; pfam07729 257310021303 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 3.8e-14 257310021304 PS00043 Bacterial regulatory proteins, gntR family signature. 257310021305 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 257310021306 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 257310021307 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 257310021308 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 257310021309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 257310021310 Coenzyme A binding pocket [chemical binding]; other site 257310021311 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 1.2e-11 257310021312 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 257310021313 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 257310021314 HIGH motif; other site 257310021315 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 257310021316 active site 257310021317 KMSKS motif; other site 257310021318 HMMPfam hit to PF00749, DE tRNA synthetases class I (E and Q), catalytic domain, score 6.4e-142 257310021319 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310021320 Signal peptide predicted for BB4372 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.751 between residues 35 and 36; signal peptide 257310021321 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310021322 12 probable transmembrane helices predicted for BB4372 by TMHMM2.0 at aa 7-24, 44-66, 73-95, 99-121, 134-156, 161-180, 214-236, 246-268, 281-298, 302-319, 339-361 and 366-388 257310021323 Signal peptide predicted for BB4373 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.895 between residues 28 and 29; signal peptide 257310021324 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310021325 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310021326 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310021327 putative DNA binding site [nucleotide binding]; other site 257310021328 putative Zn2+ binding site [ion binding]; other site 257310021329 AsnC family; Region: AsnC_trans_reg; pfam01037 257310021330 HMMPfam hit to PF01037, DE AsnC family, score 1.1e-37 257310021331 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 257310021332 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 257310021333 dimer interface [polypeptide binding]; other site 257310021334 PYR/PP interface [polypeptide binding]; other site 257310021335 TPP binding site [chemical binding]; other site 257310021336 substrate binding site [chemical binding]; other site 257310021337 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 257310021338 TPP-binding site [chemical binding]; other site 257310021339 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 257310021340 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310021341 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 257310021342 ATP cone domain; Region: ATP-cone; pfam03477 257310021343 ATP cone domain; Region: ATP-cone; pfam03477 257310021344 Class I ribonucleotide reductase; Region: RNR_I; cd01679 257310021345 active site 257310021346 dimer interface [polypeptide binding]; other site 257310021347 catalytic residues [active] 257310021348 effector binding site; other site 257310021349 R2 peptide binding site; other site 257310021350 HMMPfam hit to PF03477, DE ATP cone domain, score 9.1e-17 257310021351 HMMPfam hit to PF00317, DE Ribonucleotide reductase, all-alpha domain, score 5.6e-28 257310021352 HMMPfam hit to PF02867, DE Ribonucleotide reductase, barrel domain, score 3.4e-177 257310021353 PS00089 Ribonucleotide reductase large subunit signature. 257310021354 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 257310021355 dimer interface [polypeptide binding]; other site 257310021356 putative radical transfer pathway; other site 257310021357 diiron center [ion binding]; other site 257310021358 tyrosyl radical; other site 257310021359 HMMPfam hit to PF00268, DE Ribonucleotide reductase, small chain, score 2.7e-44 257310021360 1 probable transmembrane helix predicted for BB4377 by TMHMM2.0 at aa 235-257 257310021361 YGGT family; Region: YGGT; pfam02325 257310021362 YGGT family; Region: YGGT; pfam02325 257310021363 HMMPfam hit to PF02325, DE YGGT family, score 0.045 257310021364 4 probable transmembrane helices predicted for BB4379 by TMHMM2.0 at aa 13-35, 73-95, 108-130 and 168-190 257310021365 HMMPfam hit to PF02325, DE YGGT family, score 1e-05 257310021366 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 257310021367 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 257310021368 acyl-activating enzyme (AAE) consensus motif; other site 257310021369 AMP binding site [chemical binding]; other site 257310021370 HMMPfam hit to PF00501, DE AMP-binding protein, score 3.9e-108 257310021371 PS00697 ATP-dependent DNA ligase AMP-binding site. 257310021372 PS00455 AMP-binding domain signature. 257310021373 PS00030 Eukaryotic RNA-binding region RNP-1 signature. 257310021374 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 257310021375 8 probable transmembrane helices predicted for BB4381 by TMHMM2.0 at aa 4-26, 33-55, 75-92, 131-148, 163-185, 215-237, 310-332 and 352-371 257310021376 Signal peptide predicted for BB4382 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.986 between residues 22 and 23; signal peptide 257310021377 DltD C-terminal region; Region: DltD_C; pfam04914 257310021378 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 257310021379 Signal peptide predicted for BB4385 by SignalP 2.0 HMM (Signal peptide probabilty 0.986) with cleavage site probability 0.567 between residues 40 and 41; signal peptide 257310021380 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 257310021381 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310021382 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 257310021383 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 257310021384 substrate binding site [chemical binding]; other site 257310021385 ATP binding site [chemical binding]; other site 257310021386 HMMPfam hit to PF00294, DE pfkB family carbohydrate kinase, score 1e-36 257310021387 PS00583 pfkB family of carbohydrate kinases signature 1. 257310021388 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 257310021389 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 257310021390 1 probable transmembrane helix predicted for BB4387 by TMHMM2.0 at aa 212-234 257310021391 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 257310021392 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310021393 S-adenosylmethionine binding site [chemical binding]; other site 257310021394 PS00228 Tubulin-beta mRNA autoregulation signal. 257310021395 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 257310021396 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257310021397 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 257310021398 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 257310021399 HMMPfam hit to PF02785, DE Biotin carboxylase C-terminal domain, score 1.1e-61 257310021400 HMMPfam hit to PF02786, DE Carbamoyl-phosphate synthase L chain, ATP binding domain, score 1.7e-107 257310021401 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310021402 PS00866 Carbamoyl-phosphate synthase subdomain signature 1. 257310021403 HMMPfam hit to PF00289, DE Carbamoyl-phosphate synthase L chain, N-terminal domain, score 4.2e-53 257310021404 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 257310021405 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 257310021406 carboxyltransferase (CT) interaction site; other site 257310021407 biotinylation site [posttranslational modification]; other site 257310021408 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 8.3e-36 257310021409 PS00188 Biotin-requiring enzymes attachment site. 257310021410 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 257310021411 Dehydroquinase class II; Region: DHquinase_II; pfam01220 257310021412 trimer interface [polypeptide binding]; other site 257310021413 active site 257310021414 dimer interface [polypeptide binding]; other site 257310021415 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01220, DE Dehydroquinase class II, score 7.3e-78 257310021416 Signal peptide predicted for BB4392 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.268 between residues 16 and 17; signal peptide 257310021417 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 257310021418 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 257310021419 catalytic residues [active] 257310021420 PS00194 Thioredoxin family active site. 257310021421 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 257310021422 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 257310021423 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 257310021424 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 257310021425 HMMPfam hit to PF01225, DE Mur ligase family, catalytic domain, score 2.8e-44 257310021426 HMMPfam hit to PF02875, DE Mur ligase family, glutamate ligase domain, score 1.1e-12 257310021427 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 257310021428 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 257310021429 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 257310021430 RNB domain; Region: RNB; pfam00773 257310021431 HMMPfam hit to PF00773, DE RNB-like protein, score 3.3e-09 257310021432 Signal peptide predicted for BB4396 by SignalP 2.0 HMM (Signal peptide probabilty 0.851) with cleavage site probability 0.609 between residues 38 and 39; signal peptide 257310021433 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 257310021434 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 257310021435 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 257310021436 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 257310021437 shikimate binding site; other site 257310021438 NAD(P) binding site [chemical binding]; other site 257310021439 HMMPfam hit to PF01488, DE Shikimate / quinate 5-dehydrogenase, score 5.9e-72 257310021440 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310021441 Signal peptide predicted for BB4398 by SignalP 2.0 HMM (Signal peptide probabilty 0.722) with cleavage site probability 0.438 between residues 43 and 44; signal peptide 257310021442 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 257310021443 Transglycosylase; Region: Transgly; cl17702 257310021444 1 probable transmembrane helix predicted for BB4398 by TMHMM2.0 at aa 12-34 257310021445 HMMPfam hit to PF00912, DE Transglycosylase, score 5.3e-59 257310021446 Signal peptide predicted for BB4399 by SignalP 2.0 HMM (Signal peptide probabilty 0.948) with cleavage site probability 0.941 between residues 63 and 64; signal peptide 257310021447 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 257310021448 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 257310021449 HMMPfam hit to PF03739, DE Predicted permease YjgP/YjgQ family, score 1.2e-39 257310021450 6 probable transmembrane helices predicted for BB4399 by TMHMM2.0 at aa 41-63, 88-110, 115-137, 321-340, 347-369 and 379-401 257310021451 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 257310021452 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 257310021453 active site 257310021454 metal binding site [ion binding]; metal-binding site 257310021455 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 5.2e-10 257310021456 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 257310021457 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 257310021458 putative acyl-acceptor binding pocket; other site 257310021459 HMMPfam hit to PF01553, DE Acyltransferase, score 1.6e-16 257310021460 1 probable transmembrane helix predicted for BB4401 by TMHMM2.0 at aa 7-29 257310021461 dihydroorotase; Provisional; Region: PRK07627 257310021462 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 257310021463 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 257310021464 active site 257310021465 HMMPfam hit to PF00744, DE Dihydroorotase-like, score 1.5e-32 257310021466 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 257310021467 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 257310021468 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 257310021469 HMMPfam hit to PF00185, DE Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain, score 9.6e-23 257310021470 HMMPfam hit to PF02729, DE Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain, score 5.2e-32 257310021471 PS00097 Aspartate and ornithine carbamoyltransferases signature. 257310021472 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 257310021473 HMMPfam hit to PF03652, DE Uncharacterised protein family (UPF0081), score 9.2e-40 257310021474 hypothetical protein; Validated; Region: PRK00228 257310021475 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02622, DE Uncharacterized ACR, COG1678, score 4.2e-52 257310021476 Rubredoxin [Energy production and conversion]; Region: COG1773 257310021477 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 257310021478 iron binding site [ion binding]; other site 257310021479 HMMPfam hit to PF00301, DE Rubredoxin, score 2.4e-26 257310021480 PS00202 Rubredoxin signature. 257310021481 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 257310021482 substrate binding site [chemical binding]; other site 257310021483 dimer interface [polypeptide binding]; other site 257310021484 ATP binding site [chemical binding]; other site 257310021485 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 257310021486 thiamine phosphate binding site [chemical binding]; other site 257310021487 active site 257310021488 pyrophosphate binding site [ion binding]; other site 257310021489 HMMPfam hit to PF02581, DE Thiamine monophosphate synthase/TENI, score 4.7e-38 257310021490 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 257310021491 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310021492 inhibitor-cofactor binding pocket; inhibition site 257310021493 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310021494 catalytic residue [active] 257310021495 HMMPfam hit to PF00202, DE Aminotransferase class-III, score 6.6e-112 257310021496 PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site. 257310021497 Protein of unknown function (DUF342); Region: DUF342; pfam03961 257310021498 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 257310021499 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03961, DE Protein of unknown function (DUF342), score 7.9e-48 257310021500 PS00092 N-6 Adenine-specific DNA methylases signature. 257310021501 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310021502 homotrimer interaction site [polypeptide binding]; other site 257310021503 putative active site [active] 257310021504 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 9.2e-18 257310021505 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 257310021506 active site 257310021507 HMMPfam hit to PF03061, DE 4-hydroxybenzoyl-CoA thioesterase, score 6.9e-15 257310021508 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310021509 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 257310021510 acyl-activating enzyme (AAE) consensus motif; other site 257310021511 AMP binding site [chemical binding]; other site 257310021512 active site 257310021513 CoA binding site [chemical binding]; other site 257310021514 HMMPfam hit to PF00501, DE AMP-binding protein, score 4.5e-98 257310021515 PS00455 AMP-binding domain signature. 257310021516 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310021517 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310021518 active site 257310021519 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.7e-56 257310021520 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 2e-30 257310021521 PS00072 Acyl-CoA dehydrogenases signature 1. 257310021522 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310021523 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310021524 substrate binding site [chemical binding]; other site 257310021525 oxyanion hole (OAH) forming residues; other site 257310021526 trimer interface [polypeptide binding]; other site 257310021527 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.3e-25 257310021528 PS00166 enoyl-CoA hydratase signature. 257310021529 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310021530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310021531 NAD(P) binding site [chemical binding]; other site 257310021532 active site 257310021533 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.6e-85 257310021534 PS00061 Short-chain dehydrogenases/reductases family signature. 257310021535 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 257310021536 hypothetical protein; Provisional; Region: PRK07236 257310021537 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 257310021538 active site 257310021539 FMN binding site [chemical binding]; other site 257310021540 substrate binding site [chemical binding]; other site 257310021541 homotetramer interface [polypeptide binding]; other site 257310021542 catalytic residue [active] 257310021543 HMMPfam hit to PF00724, DE NADH:flavin oxidoreductase / NADH oxidase family, score 5.8e-69 257310021544 PS00383 Tyrosine specific protein phosphatases active site. 257310021545 PS00399 ATP-citrate lyase / succinyl-CoA ligases family active site. 257310021546 HMMPfam hit to PF01360, DE Monooxygenase, score 2e-09 257310021547 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310021548 ATP binding site [chemical binding]; other site 257310021549 Walker A/P-loop; other site 257310021550 ABC transporter; Region: ABC_tran; pfam00005 257310021551 Q-loop/lid; other site 257310021552 ABC transporter signature motif; other site 257310021553 Walker B; other site 257310021554 D-loop; other site 257310021555 H-loop/switch region; other site 257310021556 HMMPfam hit to PF00005, DE ABC transporter score 1e-28 257310021557 PS00211 ABC transporters family signature. 257310021558 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310021559 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310021560 Walker A/P-loop; other site 257310021561 ATP binding site [chemical binding]; other site 257310021562 Q-loop/lid; other site 257310021563 ABC transporter signature motif; other site 257310021564 Walker B; other site 257310021565 D-loop; other site 257310021566 H-loop/switch region; other site 257310021567 HMMPfam hit to PF00005, DE ABC transporter score 2.4e-36 257310021568 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021569 Signal peptide predicted for BB4420 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.617 between residues 26 and 27; signal peptide 257310021570 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 257310021571 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310021572 TM-ABC transporter signature motif; other site 257310021573 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 7.4e-14 257310021574 9 probable transmembrane helices predicted for BB4420 by TMHMM2.0 at aa 5-27, 37-59, 61-80, 84-106, 111-133, 153-175, 210-232, 247-269 and 282-304 257310021575 Signal peptide predicted for BB4421 by SignalP 2.0 HMM (Signal peptide probabilty 0.761) with cleavage site probability 0.492 between residues 52 and 53; signal peptide 257310021576 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310021577 TM-ABC transporter signature motif; other site 257310021578 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1e-22 257310021579 8 probable transmembrane helices predicted for BB4421 by TMHMM2.0 at aa 12-34, 63-85, 98-120, 140-162, 183-205, 215-237, 242-264 and 274-296 257310021580 Signal peptide predicted for BB4422 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.996 between residues 20 and 21; signal peptide 257310021581 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310021582 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 257310021583 putative ligand binding site [chemical binding]; other site 257310021584 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 257310021585 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 257310021586 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 257310021587 MarR family; Region: MarR; pfam01047 257310021588 HMMPfam hit to PF01047, DE MarR family, score 1e-20 257310021589 PS01117 Bacterial regulatory proteins, marR family signature. 257310021590 Signal peptide predicted for BB4425 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.734 between residues 29 and 30; signal peptide 257310021591 2 probable transmembrane helices predicted for BB4425 by TMHMM2.0 at aa 13-35 and 48-65 257310021592 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 257310021593 heterotetramer interface [polypeptide binding]; other site 257310021594 active site pocket [active] 257310021595 cleavage site 257310021596 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01960, DE ArgJ family, score 1.4e-175 257310021597 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 257310021598 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310021599 Walker A motif; other site 257310021600 ATP binding site [chemical binding]; other site 257310021601 Walker B motif; other site 257310021602 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021603 hypothetical protein; Provisional; Region: PRK08999 257310021604 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 257310021605 active site 257310021606 8-oxo-dGMP binding site [chemical binding]; other site 257310021607 nudix motif; other site 257310021608 metal binding site [ion binding]; metal-binding site 257310021609 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 257310021610 active site 257310021611 thiamine phosphate binding site [chemical binding]; other site 257310021612 pyrophosphate binding site [ion binding]; other site 257310021613 HMMPfam hit to PF00293, DE NUDIX domain, score 9.6e-23 257310021614 PS00893 mutT domain signature. 257310021615 Signal peptide predicted for BB4429 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.543 between residues 32 and 33; signal peptide 257310021616 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 257310021617 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 6.4e-50 257310021618 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 1.3e-39 257310021619 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310021620 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 257310021621 Signal peptide predicted for BB4430 by SignalP 2.0 HMM (Signal peptide probabilty 0.620) with cleavage site probability 0.370 between residues 24 and 25; signal peptide 257310021622 HMMPfam hit to PF00873, DE AcrB/AcrD/AcrF family, score 0 257310021623 10 probable transmembrane helices predicted for BB4430 by TMHMM2.0 at aa 7-29, 336-353, 360-382, 434-456, 463-485, 524-546, 858-880, 900-922, 959-981 and 991-1013 257310021624 Signal peptide predicted for BB4431 by SignalP 2.0 HMM (Signal peptide probabilty 0.964) with cleavage site probability 0.699 between residues 36 and 37; signal peptide 257310021625 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 257310021626 Protein export membrane protein; Region: SecD_SecF; cl14618 257310021627 HMMPfam hit to PF00873, DE AcrB/AcrD/AcrF family, score 0 257310021628 10 probable transmembrane helices predicted for BB4431 by TMHMM2.0 at aa 7-29, 331-353, 360-382, 429-451, 463-485, 526-548, 860-882, 902-924, 955-977 and 992-1014 257310021629 Signal peptide predicted for BB4432 by SignalP 2.0 HMM (Signal peptide probabilty 0.804) with cleavage site probability 0.706 between residues 32 and 33; signal peptide 257310021630 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 257310021631 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 257310021632 HlyD family secretion protein; Region: HlyD_3; pfam13437 257310021633 HMMPfam hit to PF00529, DE hemolysin D, score 8.8e-21 257310021634 hypothetical protein; Provisional; Region: PRK05287 257310021635 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021636 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 257310021637 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 257310021638 CoA-binding site [chemical binding]; other site 257310021639 ATP-binding [chemical binding]; other site 257310021640 HMMPfam hit to PF01121, DE Dephospho-CoA kinase, score 8.9e-68 257310021641 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021642 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 257310021643 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 257310021644 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 257310021645 HMMPfam hit to PF01478, DE Type IV leader peptidase family, score 2.2e-95 257310021646 5 probable transmembrane helices predicted for BB4435 by TMHMM2.0 at aa 10-32, 120-142, 175-197, 217-239 and 254-276 257310021647 NlpE N-terminal domain; Region: NlpE; pfam04170 257310021648 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310021649 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 257310021650 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310021651 DNA binding residues [nucleotide binding] 257310021652 dimerization interface [polypeptide binding]; other site 257310021653 HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 3.4e-18 257310021654 Pantoate-beta-alanine ligase; Region: PanC; cd00560 257310021655 pantoate--beta-alanine ligase; Region: panC; TIGR00018 257310021656 active site 257310021657 ATP-binding site [chemical binding]; other site 257310021658 pantoate-binding site; other site 257310021659 HXXH motif; other site 257310021660 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02569, DE Pantoate-beta-alanine ligase, score 9.6e-101 257310021661 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 257310021662 HMMPfam hit to PF02616, DE Uncharacterized ACR, COG1354, score 3e-28 257310021663 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 257310021664 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310021665 putative substrate translocation pore; other site 257310021666 Major Facilitator Superfamily; Region: MFS_1; pfam07690 257310021667 14 probable transmembrane helices predicted for BB4441 by TMHMM2.0 at aa 25-47, 62-84, 91-113, 117-139, 152-174, 178-200, 213-232, 237-259, 279-301, 311-333, 345-367, 373-395, 416-438 and 442-464 257310021668 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.015 257310021669 glycerol kinase; Provisional; Region: glpK; PRK00047 257310021670 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 257310021671 N- and C-terminal domain interface [polypeptide binding]; other site 257310021672 active site 257310021673 MgATP binding site [chemical binding]; other site 257310021674 catalytic site [active] 257310021675 metal binding site [ion binding]; metal-binding site 257310021676 glycerol binding site [chemical binding]; other site 257310021677 homotetramer interface [polypeptide binding]; other site 257310021678 homodimer interface [polypeptide binding]; other site 257310021679 FBP binding site [chemical binding]; other site 257310021680 protein IIAGlc interface [polypeptide binding]; other site 257310021681 HMMPfam hit to PF00370, DE FGGY family of carbohydrate kinases, N-terminal domain, score 6.2e-102 257310021682 PS00933 FGGY family of carbohydrate kinases signature 1. 257310021683 HMMPfam hit to PF02782, DE FGGY family of carbohydrate kinases, C-terminal domain, score 9.4e-79 257310021684 PS00445 FGGY family of carbohydrate kinases signature 2. 257310021685 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 257310021686 4 probable transmembrane helices predicted for BB4443 by TMHMM2.0 at aa 24-46, 67-89, 99-116 and 129-151 257310021687 Signal peptide predicted for BB4444 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.883 between residues 34 and 35; signal peptide 257310021688 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310021689 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.9e-117 257310021690 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310021691 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310021692 Walker A/P-loop; other site 257310021693 ATP binding site [chemical binding]; other site 257310021694 Q-loop/lid; other site 257310021695 ABC transporter signature motif; other site 257310021696 Walker B; other site 257310021697 D-loop; other site 257310021698 H-loop/switch region; other site 257310021699 HMMPfam hit to PF00005, DE ABC transporter score 6.1e-67 257310021700 PS00211 ABC transporters family signature. 257310021701 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021702 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310021703 dimer interface [polypeptide binding]; other site 257310021704 conserved gate region; other site 257310021705 putative PBP binding loops; other site 257310021706 ABC-ATPase subunit interface; other site 257310021707 8 probable transmembrane helices predicted for BB4446 by TMHMM2.0 at aa 36-58, 100-122, 129-151, 161-183, 195-217, 232-254, 288-310 and 325-347 257310021708 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 4.2e-17 257310021709 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310021710 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 257310021711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 257310021712 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310021713 dimer interface [polypeptide binding]; other site 257310021714 conserved gate region; other site 257310021715 putative PBP binding loops; other site 257310021716 ABC-ATPase subunit interface; other site 257310021717 7 probable transmembrane helices predicted for BB4447 by TMHMM2.0 at aa 23-45, 95-117, 130-152, 185-207, 223-245, 265-284 and 365-387 257310021718 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.2e-14 257310021719 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310021720 Signal peptide predicted for BB4448 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.971 between residues 22 and 23; signal peptide 257310021721 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 257310021722 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310021723 substrate binding pocket [chemical binding]; other site 257310021724 membrane-bound complex binding site; other site 257310021725 hinge residues; other site 257310021726 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 5.2e-38 257310021727 PS01039 Bacterial extracellular substrate-binding proteins, family 3 signature. 257310021728 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 257310021729 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310021730 Walker A/P-loop; other site 257310021731 ATP binding site [chemical binding]; other site 257310021732 Q-loop/lid; other site 257310021733 ABC transporter signature motif; other site 257310021734 Walker B; other site 257310021735 D-loop; other site 257310021736 H-loop/switch region; other site 257310021737 HMMPfam hit to PF00005, DE ABC transporter score 1.1e-61 257310021738 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021739 PS00211 ABC transporters family signature. 257310021740 Signal peptide predicted for BB4450 by SignalP 2.0 HMM (Signal peptide probabilty 0.978) with cleavage site probability 0.202 between residues 54 and 55; signal peptide 257310021741 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 257310021742 4 probable transmembrane helices predicted for BB4450 by TMHMM2.0 at aa 26-48, 174-196, 226-248 and 268-290 257310021743 HMMPfam hit to PF02687, DE Predicted permease, score 1.2e-12 257310021744 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 257310021745 HMMPfam hit to PF03975, DE CheD, score 4.3e-39 257310021746 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 257310021747 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 257310021748 dimer interface [polypeptide binding]; other site 257310021749 PYR/PP interface [polypeptide binding]; other site 257310021750 TPP binding site [chemical binding]; other site 257310021751 substrate binding site [chemical binding]; other site 257310021752 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 257310021753 TPP-binding site; other site 257310021754 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 257310021755 HMMPfam hit to PF01558, DE Pyruvate ferredoxin/flavodoxin oxidoreductase, score 8.6e-06 257310021756 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 257310021757 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 257310021758 minor groove reading motif; other site 257310021759 helix-hairpin-helix signature motif; other site 257310021760 substrate binding pocket [chemical binding]; other site 257310021761 active site 257310021762 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 257310021763 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 257310021764 DNA binding and oxoG recognition site [nucleotide binding] 257310021765 HMMPfam hit to PF00730, DE HhH-GPD superfamily base excision DNA repair protein, score 2.3e-47 257310021766 PS00764 Endonuclease III iron-sulfur binding region signature. 257310021767 HMMPfam hit to PF00293, DE NUDIX domain, score 0.022 257310021768 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310021769 salt bridge; other site 257310021770 non-specific DNA binding site [nucleotide binding]; other site 257310021771 sequence-specific DNA binding site [nucleotide binding]; other site 257310021772 Methyltransferase domain; Region: Methyltransf_31; pfam13847 257310021773 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310021774 S-adenosylmethionine binding site [chemical binding]; other site 257310021775 HMMPfam hit to PF01209, DE ubiE/COQ5 methyltransferase family, score 3.7e-05 257310021776 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 257310021777 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 257310021778 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 257310021779 substrate binding pocket [chemical binding]; other site 257310021780 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 257310021781 B12 binding site [chemical binding]; other site 257310021782 cobalt ligand [ion binding]; other site 257310021783 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 257310021784 HMMPfam hit to PF02965, DE Vitamin B12 dependent methionine synthase, activation domain, score 4.7e-125 257310021785 HMMPfam hit to PF02310, DE B12 binding domain, score 4.1e-47 257310021786 HMMPfam hit to PF02607, DE B12 binding domain, score 1.9e-38 257310021787 HMMPfam hit to PF00809, DE Pterin binding enzyme, score 4.8e-84 257310021788 HMMPfam hit to PF02574, DE Homocysteine S-methyltransferase, score 5.9e-141 257310021789 Signal peptide predicted for BB4457 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.489 between residues 25 and 26; signal peptide 257310021790 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 257310021791 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310021792 N-terminal plug; other site 257310021793 ligand-binding site [chemical binding]; other site 257310021794 Signal peptide predicted for BB4458 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.937 between residues 26 and 27; signal peptide 257310021795 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 257310021796 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 257310021797 cobalamin binding residues [chemical binding]; other site 257310021798 putative BtuC binding residues; other site 257310021799 dimer interface [polypeptide binding]; other site 257310021800 HMMPfam hit to PF01497, DE Periplasmic binding protein, score 1.6e-19 257310021801 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 257310021802 ThiS interaction site; other site 257310021803 putative active site [active] 257310021804 tetramer interface [polypeptide binding]; other site 257310021805 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 257310021806 dimer interface [polypeptide binding]; other site 257310021807 substrate binding site [chemical binding]; other site 257310021808 ATP binding site [chemical binding]; other site 257310021809 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 257310021810 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310021811 S-adenosylmethionine binding site [chemical binding]; other site 257310021812 HMMPfam hit to PF01135, DE Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT), score 6e-14 257310021813 Signal peptide predicted for BB4462 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.974 between residues 20 and 21; signal peptide 257310021814 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 257310021815 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 5e-34 257310021816 HMMPfam hit to PF02321, DE Outer membrane efflux protein, score 1.5e-37 257310021817 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310021818 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 257310021819 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 257310021820 active site 257310021821 nucleotide binding site [chemical binding]; other site 257310021822 HIGH motif; other site 257310021823 KMSKS motif; other site 257310021824 HMMPfam hit to PF01467, DE Cytidylyltransferase, score 4.5e-29 257310021825 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 257310021826 dinuclear metal binding motif [ion binding]; other site 257310021827 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 257310021828 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 257310021829 1 probable transmembrane helix predicted for BB4465 by TMHMM2.0 at aa 499-518 257310021830 HMMPfam hit to PF03109, DE ABC1 family, score 1.5e-46 257310021831 SCP-2 sterol transfer family; Region: SCP2; pfam02036 257310021832 Signal peptide predicted for BB4467 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.602 between residues 23 and 24; signal peptide 257310021833 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 257310021834 3 probable transmembrane helices predicted for BB4467 by TMHMM2.0 at aa 5-27, 94-116 and 120-142 257310021835 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 257310021836 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 257310021837 S-adenosylmethionine binding site [chemical binding]; other site 257310021838 HMMPfam hit to PF01209, DE ubiE/COQ5 methyltransferase family, score 3.4e-110 257310021839 PS01184 ubiE/COQ5 methyltransferase family signature 2. 257310021840 PS01183 ubiE/COQ5 methyltransferase family signature 1. 257310021841 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 257310021842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310021843 active site 257310021844 phosphorylation site [posttranslational modification] 257310021845 intermolecular recognition site; other site 257310021846 dimerization interface [polypeptide binding]; other site 257310021847 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310021848 DNA binding site [nucleotide binding] 257310021849 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 5.6e-38 257310021850 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 8.6e-31 257310021851 Signal peptide predicted for BB4470 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.641 between residues 38 and 39; signal peptide 257310021852 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 257310021853 PAS domain; Region: PAS; smart00091 257310021854 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310021855 dimer interface [polypeptide binding]; other site 257310021856 phosphorylation site [posttranslational modification] 257310021857 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310021858 ATP binding site [chemical binding]; other site 257310021859 G-X-G motif; other site 257310021860 1 probable transmembrane helix predicted for BB4470 by TMHMM2.0 at aa 12-34 257310021861 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 4.3e-23 257310021862 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 3.1e-38 257310021863 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 257310021864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310021865 active site 257310021866 phosphorylation site [posttranslational modification] 257310021867 intermolecular recognition site; other site 257310021868 dimerization interface [polypeptide binding]; other site 257310021869 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310021870 DNA binding site [nucleotide binding] 257310021871 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.4e-33 257310021872 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 5.8e-30 257310021873 Signal peptide predicted for BB4472 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.685 between residues 29 and 30; signal peptide 257310021874 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 257310021875 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310021876 dimerization interface [polypeptide binding]; other site 257310021877 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310021878 dimer interface [polypeptide binding]; other site 257310021879 phosphorylation site [posttranslational modification] 257310021880 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310021881 ATP binding site [chemical binding]; other site 257310021882 G-X-G motif; other site 257310021883 2 probable transmembrane helices predicted for BB4472 by TMHMM2.0 at aa 12-34 and 155-177 257310021884 HMMPfam hit to PF00672, DE HAMP domain, score 3.7e-09 257310021885 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 7.3e-18 257310021886 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 1.3e-32 257310021887 Signal peptide predicted for BB4473 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 24 and 25; signal peptide 257310021888 Predicted metal-binding protein [General function prediction only]; Region: COG3019 257310021889 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 257310021890 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 257310021891 ligand binding site [chemical binding]; other site 257310021892 NAD binding site [chemical binding]; other site 257310021893 tetramer interface [polypeptide binding]; other site 257310021894 catalytic site [active] 257310021895 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 257310021896 L-serine binding site [chemical binding]; other site 257310021897 ACT domain interface; other site 257310021898 HMMPfam hit to PF00389, DE D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain, score 1.3e-28 257310021899 HMMPfam hit to PF02826, DE D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain, score 3.3e-83 257310021900 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021901 PS00065 D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature. 257310021902 PS00670 D-isomer specific 2-hydroxyacid dehydrogenases signature 2. 257310021903 PS00671 D-isomer specific 2-hydroxyacid dehydrogenases signature 3. 257310021904 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01842, DE ACT domain, score 5e-07 257310021905 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310021906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310021907 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 257310021908 putative dimerization interface [polypeptide binding]; other site 257310021909 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.3e-42 257310021910 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1e-21 257310021911 PS00044 Bacterial regulatory proteins, lysR family signature. 257310021912 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 257310021913 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310021914 putative metal binding site [ion binding]; other site 257310021915 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 257310021916 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 257310021917 HMMPfam hit to PF02682, DE Uncharacterized ACR, COG2049, score 1.1e-53 257310021918 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 257310021919 HMMPfam hit to PF02626, DE Uncharacterized ACR, COG1984, score 1.6e-100 257310021920 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 257310021921 putative active site [active] 257310021922 HMMPfam hit to PF03746, DE LamB/YcsF family, score 4.2e-172 257310021923 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310021924 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310021925 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310021926 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 7.5e-09 257310021927 Tripartite tricarboxylate transporter family receptor; Region: TctC; pfam03401 257310021928 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 7.9e-163 257310021929 Signal peptide predicted for BB4482 by SignalP 2.0 HMM (Signal peptide probabilty 0.926) with cleavage site probability 0.464 between residues 18 and 19; signal peptide 257310021930 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 257310021931 salicylate hydroxylase; Provisional; Region: PRK08163 257310021932 HMMPfam hit to PF01360, DE Monooxygenase, score 9e-56 257310021933 enoyl-CoA hydratase; Provisional; Region: PRK08290 257310021934 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310021935 substrate binding site [chemical binding]; other site 257310021936 oxyanion hole (OAH) forming residues; other site 257310021937 trimer interface [polypeptide binding]; other site 257310021938 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.4e-33 257310021939 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 257310021940 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 257310021941 PS01173 Lipolytic enzymes 'G-D-X-G' family, histidine active site. 257310021942 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310021943 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310021944 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 4.8e-82 257310021945 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310021946 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310021947 DNA-binding site [nucleotide binding]; DNA binding site 257310021948 FCD domain; Region: FCD; pfam07729 257310021949 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.1e-11 257310021950 PS00043 Bacterial regulatory proteins, gntR family signature. 257310021951 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 257310021952 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 257310021953 FAD binding domain; Region: FAD_binding_4; pfam01565 257310021954 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 257310021955 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 257310021956 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 257310021957 Cysteine-rich domain; Region: CCG; pfam02754 257310021958 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 257310021959 PS00198 4Fe-4S ferredoxins, iron-sulfur binding region signature. 257310021960 PS00190 Cytochrome c family heme-binding site signature. 257310021961 HMMPfam hit to PF00037, DE 4Fe-4S binding domain, score 0.091 257310021962 HMMPfam hit to PF02913, DE FAD linked oxidases, C-terminal domain, score 3.5e-05 257310021963 HMMPfam hit to PF01565, DE FAD binding domain, score 3.9e-34 257310021964 Predicted membrane protein [Function unknown]; Region: COG1238 257310021965 4 probable transmembrane helices predicted for BB4488 by TMHMM2.0 at aa 13-35, 55-77, 124-146 and 151-173 257310021966 threonine dehydratase; Reviewed; Region: PRK09224 257310021967 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 257310021968 tetramer interface [polypeptide binding]; other site 257310021969 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310021970 catalytic residue [active] 257310021971 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 257310021972 putative Ile/Val binding site [chemical binding]; other site 257310021973 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 257310021974 putative Ile/Val binding site [chemical binding]; other site 257310021975 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 1.5e-99 257310021976 PS00165 Serine/threonine dehydratases pyridoxal-phosphate attachment site. 257310021977 PS00063 Aldo/keto reductase family active site signature. 257310021978 HMMPfam hit to PF00585, DE C-terminal regulatory domain of Threonine dehydratase, score 1.1e-39 257310021979 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00585, DE C-terminal regulatory domain of Threonine dehydratase, score 1.8e-34 257310021980 Signal peptide predicted for BB4490 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 20 and 21; signal peptide 257310021981 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 257310021982 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 257310021983 trimer interface [polypeptide binding]; other site 257310021984 eyelet of channel; other site 257310021985 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00267, DE Gram-negative porin, score 1.6e-05 257310021986 Signal peptide predicted for BB4491 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 24 and 25; signal peptide 257310021987 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 257310021988 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021989 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021990 PS00017 ATP/GTP-binding site motif A (P-loop). 257310021991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310021992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310021993 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 257310021994 putative effector binding pocket; other site 257310021995 dimerization interface [polypeptide binding]; other site 257310021996 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 6.1e-20 257310021997 PS00044 Bacterial regulatory proteins, lysR family signature. 257310021998 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.5e-38 257310021999 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257310022000 active site 257310022001 HMMPfam hit to PF00156, DE Phosphoribosyl transferase domain, score 1.4e-43 257310022002 PS00103 Purine/pyrimidine phosphoribosyl transferases signature. 257310022003 Signal peptide predicted for BB4494 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.716 between residues 49 and 50; signal peptide 257310022004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310022005 Walker A/P-loop; other site 257310022006 ATP binding site [chemical binding]; other site 257310022007 ABC transporter; Region: ABC_tran; pfam00005 257310022008 Q-loop/lid; other site 257310022009 ABC transporter signature motif; other site 257310022010 Walker B; other site 257310022011 D-loop; other site 257310022012 H-loop/switch region; other site 257310022013 HMMPfam hit to PF00005, DE ABC transporter score 5.4e-46 257310022014 PS00211 ABC transporters family signature. 257310022015 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022016 HMMPfam hit to PF00664, DE ABC transporter transmembrane region, score 9.7e-08 257310022017 6 probable transmembrane helices predicted for BB4494 by TMHMM2.0 at aa 20-42, 47-69, 131-153, 157-179, 241-263 and 273-295 257310022018 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 257310022019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310022020 Walker A/P-loop; other site 257310022021 ATP binding site [chemical binding]; other site 257310022022 Q-loop/lid; other site 257310022023 ABC transporter signature motif; other site 257310022024 Walker B; other site 257310022025 D-loop; other site 257310022026 H-loop/switch region; other site 257310022027 HMMPfam hit to PF00005, DE ABC transporter score 4.7e-47 257310022028 PS00211 ABC transporters family signature. 257310022029 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022030 HMMPfam hit to PF00664, DE ABC transporter transmembrane region, score 7.8e-20 257310022031 5 probable transmembrane helices predicted for BB4495 by TMHMM2.0 at aa 37-59, 74-96, 149-171, 176-198 and 259-281 257310022032 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 257310022033 Signal peptide predicted for BB4496 by SignalP 2.0 HMM (Signal peptide probabilty 0.971) with cleavage site probability 0.827 between residues 21 and 22; signal peptide 257310022034 1 probable transmembrane helix predicted for BB4496 by TMHMM2.0 at aa 2-24 257310022035 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022036 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 257310022037 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 257310022038 HMMPfam hit to PF02322, DE Cytochrome oxidase subunit II, score 3.3e-148 257310022039 8 probable transmembrane helices predicted for BB4497 by TMHMM2.0 at aa 13-30, 83-105, 126-148, 174-196, 209-231, 269-291, 298-320 and 340-362 257310022040 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 257310022041 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 257310022042 HMMPfam hit to PF01654, DE Bacterial Cytochrome Ubiquinol Oxidase, score 1.2e-255 257310022043 9 probable transmembrane helices predicted for BB4498 by TMHMM2.0 at aa 28-50, 70-92, 112-134, 141-163, 202-224, 237-254, 403-425, 438-460 and 484-506 257310022044 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310022045 Predicted transcriptional regulators [Transcription]; Region: COG1510 257310022046 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310022047 dimerization interface [polypeptide binding]; other site 257310022048 putative DNA binding site [nucleotide binding]; other site 257310022049 putative Zn2+ binding site [ion binding]; other site 257310022050 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 257310022051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310022052 ATP-grasp domain; Region: ATP-grasp; pfam02222 257310022053 HMMPfam hit to PF02222, DE ATP-grasp domain, score 6.4e-38 257310022054 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 257310022055 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 257310022056 putative active site [active] 257310022057 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 257310022058 HMMPfam hit to PF01380, DE SIS domain, score 2e-33 257310022059 HMMPfam hit to PF00571, DE CBS domain, score 4.4e-07 257310022060 HMMPfam hit to PF00571, DE CBS domain, score 7.1e-09 257310022061 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 257310022062 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310022063 active site 257310022064 motif I; other site 257310022065 motif II; other site 257310022066 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 0.1 257310022067 Signal peptide predicted for BB4503 by SignalP 2.0 HMM (Signal peptide probabilty 0.991) with cleavage site probability 0.508 between residues 28 and 29; signal peptide 257310022068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 257310022069 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 257310022070 1 probable transmembrane helix predicted for BB4503 by TMHMM2.0 at aa 7-24 257310022071 Signal peptide predicted for BB4504 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.538 between residues 27 and 28; signal peptide 257310022072 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 257310022073 OstA-like protein; Region: OstA; pfam03968 257310022074 HMMPfam hit to PF03968, DE OstA-like protein, score 7.6e-07 257310022075 Signal peptide predicted for BB4505 by SignalP 2.0 HMM (Signal peptide probabilty 0.962) with cleavage site probability 0.565 between residues 23 and 24; signal peptide 257310022076 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 257310022077 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 257310022078 Walker A/P-loop; other site 257310022079 ATP binding site [chemical binding]; other site 257310022080 Q-loop/lid; other site 257310022081 ABC transporter signature motif; other site 257310022082 Walker B; other site 257310022083 D-loop; other site 257310022084 H-loop/switch region; other site 257310022085 HMMPfam hit to PF00005, DE ABC transporter score 2.6e-60 257310022086 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022087 PS00211 ABC transporters family signature. 257310022088 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 257310022089 30S subunit binding site; other site 257310022090 HMMPfam hit to PF02482, DE Sigma 54 modulation protein / S30EA ribosomal protein, score 7.5e-42 257310022091 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 257310022092 active site 257310022093 phosphorylation site [posttranslational modification] 257310022094 HMMPfam hit to PF00359, DE Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2, score 8.4e-11 257310022095 PS00372 PTS EIIA domains phosphorylation site signature 2. 257310022096 HPr kinase/phosphorylase; Provisional; Region: PRK05428 257310022097 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 257310022098 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 257310022099 Hpr binding site; other site 257310022100 active site 257310022101 homohexamer subunit interaction site [polypeptide binding]; other site 257310022102 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02603, DE HPr Serine kinase, score 3.3e-55 257310022103 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022104 Signal peptide predicted for BB4509 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.305 between residues 20 and 21; signal peptide 257310022105 Cytochrome c; Region: Cytochrom_C; pfam00034 257310022106 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310022107 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310022108 Cytochrome c; Region: Cytochrom_C; pfam00034 257310022109 HMMPfam hit to PF00034, DE Cytochrome c, score 0.0057 257310022110 PS00190 Cytochrome c family heme-binding site signature. 257310022111 PS00190 Cytochrome c family heme-binding site signature. 257310022112 PS00190 Cytochrome c family heme-binding site signature. 257310022113 1 probable transmembrane helix predicted for BB4509 by TMHMM2.0 at aa 7-26 257310022114 Signal peptide predicted for BB4510 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.937 between residues 36 and 37; signal peptide 257310022115 Cytochrome c; Region: Cytochrom_C; cl11414 257310022116 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310022117 Cytochrome c; Region: Cytochrom_C; cl11414 257310022118 HMMPfam hit to PF00034, DE Cytochrome c, score 0.035 257310022119 PS00190 Cytochrome c family heme-binding site signature. 257310022120 PS00190 Cytochrome c family heme-binding site signature. 257310022121 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 257310022122 AAA domain; Region: AAA_18; pfam13238 257310022123 HMMPfam hit to PF03668, DE Uncharacterised P-loop ATPase family (UPF0042), score 8.2e-89 257310022124 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022125 Signal peptide predicted for BB4512 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.564 between residues 21 and 22; signal peptide 257310022126 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 257310022127 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 257310022128 Sporulation related domain; Region: SPOR; pfam05036 257310022129 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022130 HMMPfam hit to PF03330, DE Rare lipoprotein A (RlpA) family, score 4.4e-52 257310022131 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 257310022132 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 257310022133 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 257310022134 DNA binding site [nucleotide binding] 257310022135 active site 257310022136 HMMPfam hit to PF01035, DE 6-O-methylguanine DNA methyltransferase, DNA binding domain, score 8.4e-48 257310022137 PS00374 Methylated-DNA--protein-cysteine methyltransferase active site. 257310022138 Predicted methyltransferases [General function prediction only]; Region: COG0313 257310022139 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 257310022140 putative SAM binding site [chemical binding]; other site 257310022141 putative homodimer interface [polypeptide binding]; other site 257310022142 HMMPfam hit to PF00590, DE Tetrapyrrole (Corrin/Porphyrin) Methylases, score 7.8e-31 257310022143 PS01296 Uncharacterized protein family UPF0011 signature. 257310022144 hypothetical protein; Provisional; Region: PRK14685 257310022145 HMMPfam hit to PF02021, DE Uncharacterised protein family UPF0102, score 1.6e-28 257310022146 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 257310022147 active site 257310022148 dimer interface [polypeptide binding]; other site 257310022149 HMMPfam hit to PF01380, DE SIS domain, score 6.7e-26 257310022150 Signal peptide predicted for BB4517 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.551 between residues 38 and 39; signal peptide 257310022151 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 257310022152 BON domain; Region: BON; pfam04972 257310022153 1 probable transmembrane helix predicted for BB4517 by TMHMM2.0 at aa 12-34 257310022154 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022155 Signal peptide predicted for BB4518 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.921 between residues 27 and 28; signal peptide 257310022156 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 257310022157 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 257310022158 catalytic residues [active] 257310022159 1 probable transmembrane helix predicted for BB4518 by TMHMM2.0 at aa 5-22 257310022160 Signal peptide predicted for BB4519 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.911 between residues 24 and 25; signal peptide 257310022161 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 257310022162 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 257310022163 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03180, DE NLPA lipoprotein, score 1.1e-150 257310022164 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 257310022165 feedback inhibition sensing region; other site 257310022166 homohexameric interface [polypeptide binding]; other site 257310022167 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 257310022168 nucleotide binding site [chemical binding]; other site 257310022169 N-acetyl-L-glutamate binding site [chemical binding]; other site 257310022170 HMMPfam hit to PF00696, DE Amino acid kinase family, score 1.6e-45 257310022171 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 257310022172 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310022173 motif II; other site 257310022174 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 3.7e-12 257310022175 division inhibitor protein; Provisional; Region: slmA; PRK09480 257310022176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310022177 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 257310022178 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 257310022179 transmembrane helices; other site 257310022180 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00939, DE Sodium:sulfate symporter transmembrane region, score 1.8e-160 257310022181 12 probable transmembrane helices predicted for BB4523 by TMHMM2.0 at aa 20-42, 49-71, 111-130, 151-173, 193-212, 239-261, 316-333, 345-367, 382-404, 409-426, 436-458 and 471-493 257310022182 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 257310022183 HMMPfam hit to PF02615, DE Malate/L-lactate dehydrogenase, score 6.2e-76 257310022184 Signal peptide predicted for BB4525 by SignalP 2.0 HMM (Signal peptide probabilty 0.985) with cleavage site probability 0.961 between residues 39 and 40; signal peptide 257310022185 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 257310022186 HMMPfam hit to PF01098, DE Cell cycle protein, score 2.3e-125 257310022187 8 probable transmembrane helices predicted for BB4525 by TMHMM2.0 at aa 7-29, 69-91, 133-155, 159-178, 183-200, 283-305, 317-339 and 349-371 257310022188 PS00428 Cell cycle proteins ftsW / rodA / spoVE signature. 257310022189 Signal peptide predicted for BB4526 by SignalP 2.0 HMM (Signal peptide probabilty 0.984) with cleavage site probability 0.979 between residues 34 and 35; signal peptide 257310022190 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 257310022191 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 257310022192 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 257310022193 HMMPfam hit to PF00905, DE Penicillin binding protein transpeptidase domain, score 4.3e-73 257310022194 PS00146 Beta-lactamase class-A active site. 257310022195 HMMPfam hit to PF03717, DE Penicillin-binding Protein dimerisation domain, score 2.5e-42 257310022196 1 probable transmembrane helix predicted for BB4526 by TMHMM2.0 at aa 20-42 257310022197 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022198 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 257310022199 4 probable transmembrane helices predicted for BB4527 by TMHMM2.0 at aa 32-49, 92-111, 124-146 and 150-172 257310022200 rod shape-determining protein MreC; Provisional; Region: PRK13922 257310022201 rod shape-determining protein MreC; Region: MreC; pfam04085 257310022202 rod shape-determining protein MreB; Provisional; Region: PRK13927 257310022203 MreB and similar proteins; Region: MreB_like; cd10225 257310022204 nucleotide binding site [chemical binding]; other site 257310022205 Mg binding site [ion binding]; other site 257310022206 putative protofilament interaction site [polypeptide binding]; other site 257310022207 RodZ interaction site [polypeptide binding]; other site 257310022208 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 257310022209 Signal peptide predicted for BB4530 by SignalP 2.0 HMM (Signal peptide probabilty 0.601) with cleavage site probability 0.569 between residues 21 and 22; signal peptide 257310022210 HMMPfam hit to PF02686, DE Glu-tRNAGln amidotransferase C subunit, score 9.2e-13 257310022211 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257310022212 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 257310022213 HMMPfam hit to PF01425, DE Amidase, score 7.8e-181 257310022214 PS00571 Amidases signature. 257310022215 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 257310022216 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 257310022217 GatB domain; Region: GatB_Yqey; smart00845 257310022218 HMMPfam hit to PF02934, DE PET112 family, N terminal region, score 1.3e-141 257310022219 PS01234 PET112 family signature. 257310022220 HMMPfam hit to PF01162, DE PET112 family, C terminal region, score 1.2e-31 257310022221 HMMPfam hit to PF02637, DE GatB/Yqey domain, score 8.7e-56 257310022222 Signal peptide predicted for BB4533 by SignalP 2.0 HMM (Signal peptide probabilty 0.961) with cleavage site probability 0.918 between residues 19 and 20; signal peptide 257310022223 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 257310022224 active site 257310022225 HMMPfam hit to PF00156, DE Phosphoribosyl transferase domain, score 2.9e-28 257310022226 PS00103 Purine/pyrimidine phosphoribosyl transferases signature. 257310022227 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 257310022228 putative active site [active] 257310022229 putative catalytic site [active] 257310022230 putative DNA binding site [nucleotide binding]; other site 257310022231 putative phosphate binding site [ion binding]; other site 257310022232 metal binding site A [ion binding]; metal-binding site 257310022233 putative AP binding site [nucleotide binding]; other site 257310022234 putative metal binding site B [ion binding]; other site 257310022235 HMMPfam hit to PF03372, DE Endonuclease/Exonuclease/phosphatase family, score 4.2e-46 257310022236 PS00726 AP endonucleases family 1 signature 1. 257310022237 glutamate dehydrogenase; Provisional; Region: PRK09414 257310022238 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 257310022239 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 257310022240 NAD(P) binding site [chemical binding]; other site 257310022241 HMMPfam hit to PF02812, DE Glu/Leu/Phe/Val dehydrogenase, dimerisation domain, score 2.8e-70 257310022242 PS00074 Glu / Leu / Phe / Val dehydrogenases active site. 257310022243 HMMPfam hit to PF00208, DE Glutamate/Leucine/Phenylalanine/Valine dehydrogenase, score 3e-118 257310022244 Predicted membrane protein [Function unknown]; Region: COG2860 257310022245 UPF0126 domain; Region: UPF0126; pfam03458 257310022246 UPF0126 domain; Region: UPF0126; pfam03458 257310022247 6 probable transmembrane helices predicted for BB4536 by TMHMM2.0 at aa 13-35, 50-67, 72-94, 98-117, 126-148 and 152-174 257310022248 HMMPfam hit to PF03458, DE UPF0126 domain, score 1.6e-29 257310022249 HMMPfam hit to PF03458, DE UPF0126 domain, score 6.1e-16 257310022250 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 257310022251 Ligand Binding Site [chemical binding]; other site 257310022252 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 257310022253 Ligand Binding Site [chemical binding]; other site 257310022254 HMMPfam hit to PF00582, DE Universal stress protein family, score 1.5e-12 257310022255 HMMPfam hit to PF00582, DE Universal stress protein family, score 5e-08 257310022256 transcriptional activator TtdR; Provisional; Region: PRK09801 257310022257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310022258 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 257310022259 putative effector binding pocket; other site 257310022260 putative dimerization interface [polypeptide binding]; other site 257310022261 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.4e-43 257310022262 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4e-15 257310022263 tartrate dehydrogenase; Region: TTC; TIGR02089 257310022264 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 257310022265 HMMPfam hit to PF00180, DE Isocitrate/isopropylmalate dehydrogenase, score 7.3e-86 257310022266 PS00470 Isocitrate and isopropylmalate dehydrogenases signature. 257310022267 Signal peptide predicted for BB4540 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.781 between residues 22 and 23; signal peptide 257310022268 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 257310022269 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 257310022270 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 257310022271 PS00136 Serine proteases, subtilase family, aspartic acid active site. 257310022272 Signal peptide predicted for BB4541 by SignalP 2.0 HMM (Signal peptide probabilty 0.974) with cleavage site probability 0.940 between residues 31 and 32; signal peptide 257310022273 Domain of unknown function (DUF305); Region: DUF305; pfam03713 257310022274 HMMPfam hit to PF03713, DE Domain of unknown function, score 1.5e-20 257310022275 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 257310022276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310022277 active site 257310022278 phosphorylation site [posttranslational modification] 257310022279 intermolecular recognition site; other site 257310022280 dimerization interface [polypeptide binding]; other site 257310022281 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310022282 DNA binding site [nucleotide binding] 257310022283 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 1.6e-32 257310022284 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 3.9e-24 257310022285 Signal peptide predicted for BB4543 by SignalP 2.0 HMM (Signal peptide probabilty 0.988) with cleavage site probability 0.830 between residues 39 and 40; signal peptide 257310022286 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 257310022287 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 257310022288 dimerization interface [polypeptide binding]; other site 257310022289 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310022290 dimer interface [polypeptide binding]; other site 257310022291 phosphorylation site [posttranslational modification] 257310022292 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310022293 ATP binding site [chemical binding]; other site 257310022294 G-X-G motif; other site 257310022295 2 probable transmembrane helices predicted for BB4543 by TMHMM2.0 at aa 15-34 and 168-190 257310022296 HMMPfam hit to PF00672, DE HAMP domain, score 3.3e-09 257310022297 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 5.2e-16 257310022298 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 1.4e-25 257310022299 cell density-dependent motility repressor; Provisional; Region: PRK10082 257310022300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310022301 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310022302 dimerization interface [polypeptide binding]; other site 257310022303 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 2.7e-12 257310022304 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.6e-13 257310022305 PS00044 Bacterial regulatory proteins, lysR family signature. 257310022306 D-cysteine desulfhydrase; Validated; Region: PRK03910 257310022307 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 257310022308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 257310022309 catalytic residue [active] 257310022310 HMMPfam hit to PF00291, DE Pyridoxal-phosphate dependent enzyme, score 2.4e-06 257310022311 Signal peptide predicted for BB4546 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.998 between residues 22 and 23; signal peptide 257310022312 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310022313 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257310022314 substrate binding pocket [chemical binding]; other site 257310022315 membrane-bound complex binding site; other site 257310022316 hinge residues; other site 257310022317 HMMPfam hit to PF00497, DE Bacterial extracellular substrate-binding proteins, family 3, score 5.7e-53 257310022318 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310022319 dimer interface [polypeptide binding]; other site 257310022320 conserved gate region; other site 257310022321 putative PBP binding loops; other site 257310022322 ABC-ATPase subunit interface; other site 257310022323 5 probable transmembrane helices predicted for BB4547 by TMHMM2.0 at aa 30-52, 65-87, 102-119, 174-196 and 206-225 257310022324 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 5.2e-11 257310022325 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 257310022326 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310022327 dimer interface [polypeptide binding]; other site 257310022328 conserved gate region; other site 257310022329 putative PBP binding loops; other site 257310022330 ABC-ATPase subunit interface; other site 257310022331 6 probable transmembrane helices predicted for BB4548 by TMHMM2.0 at aa 20-42, 63-85, 95-117, 130-152, 167-189 and 196-218 257310022332 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.9e-16 257310022333 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 257310022334 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 257310022335 Walker A/P-loop; other site 257310022336 ATP binding site [chemical binding]; other site 257310022337 Q-loop/lid; other site 257310022338 ABC transporter signature motif; other site 257310022339 Walker B; other site 257310022340 D-loop; other site 257310022341 H-loop/switch region; other site 257310022342 HMMPfam hit to PF00005, DE ABC transporter score 1.6e-60 257310022343 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022344 PS00211 ABC transporters family signature. 257310022345 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 257310022346 aspartate racemase; Region: asp_race; TIGR00035 257310022347 HMMPfam hit to PF01177, DE Asp/Glu/Hydontoin racemase, score 3.7e-08 257310022348 PS00923 Aspartate and glutamate racemases signature 1. 257310022349 Signal peptide predicted for BB4551 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 20 and 21; signal peptide 257310022350 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 257310022351 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 257310022352 trimer interface [polypeptide binding]; other site 257310022353 eyelet of channel; other site 257310022354 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00267, DE Gram-negative porin, score 4.4e-05 257310022355 muropeptide transporter; Reviewed; Region: ampG; PRK11902 257310022356 Signal peptide predicted for BB4552 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.441 between residues 26 and 27; signal peptide 257310022357 muropeptide transporter; Validated; Region: ampG; cl17669 257310022358 12 probable transmembrane helices predicted for BB4552 by TMHMM2.0 at aa 5-27, 37-56, 69-88, 93-115, 136-154, 158-180, 215-237, 247-269, 274-296, 306-328, 341-363 and 367-389 257310022359 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 257310022360 Signal peptide predicted for BB4554 by SignalP 2.0 HMM (Signal peptide probabilty 0.984) with cleavage site probability 0.413 between residues 26 and 27; signal peptide 257310022361 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 257310022362 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 257310022363 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 1e-09 257310022364 Signal peptide predicted for BB4555 by SignalP 2.0 HMM (Signal peptide probabilty 0.947) with cleavage site probability 0.940 between residues 27 and 28; signal peptide 257310022365 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 257310022366 HMMPfam hit to PF02615, DE Malate/L-lactate dehydrogenase, score 9.9e-57 257310022367 Signal peptide predicted for BB4556 by SignalP 2.0 HMM (Signal peptide probabilty 0.771) with cleavage site probability 0.411 between residues 29 and 30; signal peptide 257310022368 Membrane transport protein; Region: Mem_trans; cl09117 257310022369 8 probable transmembrane helices predicted for BB4556 by TMHMM2.0 at aa 7-29, 39-58, 71-93, 113-135, 187-209, 214-236, 243-262 and 272-294 257310022370 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 257310022371 DNA binding residues [nucleotide binding] 257310022372 HMMPfam hit to PF00196, DE Bacterial regulatory proteins, luxR family, score 2.9e-19 257310022373 monoglyceride lipase; Provisional; Region: PHA02857 257310022374 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 257310022375 Serine hydrolase; Region: Ser_hydrolase; cl17834 257310022376 glutamate--cysteine ligase; Provisional; Region: PRK02107 257310022377 Signal peptide predicted for BB4561 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.794 between residues 19 and 20; signal peptide 257310022378 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 257310022379 PS00213 Lipocalin signature. 257310022380 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 257310022381 active site 257310022382 Zn binding site [ion binding]; other site 257310022383 Signal peptide predicted for BB4563 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.837 between residues 27 and 28; signal peptide 257310022384 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310022385 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 6e-55 257310022386 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310022387 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310022388 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 257310022389 dimerization interface [polypeptide binding]; other site 257310022390 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03466, DE LysR substrate binding domain, score 9.6e-21 257310022391 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.2e-16 257310022392 PS00044 Bacterial regulatory proteins, lysR family signature. 257310022393 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 257310022394 active site 257310022395 oligomerization interface [polypeptide binding]; other site 257310022396 metal binding site [ion binding]; metal-binding site 257310022397 HMMPfam hit to PF02548, DE Ketopantoate hydroxymethyltransferase, score 3.4e-120 257310022398 Signal peptide predicted for BB4566 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.987 between residues 32 and 33; signal peptide 257310022399 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 257310022400 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 257310022401 trimer interface [polypeptide binding]; other site 257310022402 eyelet of channel; other site 257310022403 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00267, DE Gram-negative porin, score 5e-07 257310022404 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310022405 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022406 Transcriptional regulators [Transcription]; Region: PurR; COG1609 257310022407 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257310022408 DNA binding site [nucleotide binding] 257310022409 domain linker motif; other site 257310022410 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_7; cd06285 257310022411 putative dimerization interface [polypeptide binding]; other site 257310022412 putative ligand binding site [chemical binding]; other site 257310022413 HMMPfam hit to PF00532, DE Periplasmic binding proteins and sugar binding domain of the LacI family, score 2.5e-19 257310022414 PS00717 Sigma-54 factors family signature 1. 257310022415 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310022416 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310022417 TM-ABC transporter signature motif; other site 257310022418 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.8e-42 257310022419 7 probable transmembrane helices predicted for BB4568 by TMHMM2.0 at aa 7-29, 57-79, 92-114, 136-158, 190-212, 227-249 and 254-276 257310022420 Signal peptide predicted for BB4569 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.748 between residues 22 and 23; signal peptide 257310022421 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310022422 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310022423 TM-ABC transporter signature motif; other site 257310022424 8 probable transmembrane helices predicted for BB4569 by TMHMM2.0 at aa 10-32, 39-61, 76-98, 105-124, 153-170, 202-224, 239-261 and 273-292 257310022425 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 1.3e-29 257310022426 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310022427 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310022428 Walker A/P-loop; other site 257310022429 ATP binding site [chemical binding]; other site 257310022430 Q-loop/lid; other site 257310022431 ABC transporter signature motif; other site 257310022432 Walker B; other site 257310022433 D-loop; other site 257310022434 H-loop/switch region; other site 257310022435 HMMPfam hit to PF00005, DE ABC transporter score 1.7e-52 257310022436 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022437 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310022438 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310022439 Walker A/P-loop; other site 257310022440 ATP binding site [chemical binding]; other site 257310022441 Q-loop/lid; other site 257310022442 ABC transporter signature motif; other site 257310022443 Walker B; other site 257310022444 D-loop; other site 257310022445 H-loop/switch region; other site 257310022446 HMMPfam hit to PF00005, DE ABC transporter score 3.1e-48 257310022447 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022448 PS00211 ABC transporters family signature. 257310022449 Signal peptide predicted for BB4572 by SignalP 2.0 HMM (Signal peptide probabilty 0.941) with cleavage site probability 0.428 between residues 21 and 22; signal peptide 257310022450 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 257310022451 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 257310022452 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022453 HMMPfam hit to PF01094, DE Receptor family ligand binding region, score 0.00051 257310022454 ortholog of Bordetella pertussis (BX470248) BP3321; amidase (pseudogene) 257310022455 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01425, DE Amidase, score 3e-08 257310022456 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022457 HMMPfam hit to PF01425, DE Amidase, score 1.6e-05 257310022458 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 257310022459 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310022460 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310022461 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310022462 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 1.3e-54 257310022463 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310022464 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310022465 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 6.1e-59 257310022466 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310022467 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310022468 substrate binding site [chemical binding]; other site 257310022469 oxyanion hole (OAH) forming residues; other site 257310022470 trimer interface [polypeptide binding]; other site 257310022471 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 7.7e-10 257310022472 Signal peptide predicted for BB4579 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.953 between residues 16 and 17; signal peptide 257310022473 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 257310022474 Signal peptide predicted for BB4580 by SignalP 2.0 HMM (Signal peptide probabilty 0.962) with cleavage site probability 0.882 between residues 34 and 35; signal peptide 257310022475 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 257310022476 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 257310022477 Multicopper oxidase; Region: Cu-oxidase; pfam00394 257310022478 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 257310022479 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00394, DE Multicopper oxidase, score 0.0021 257310022480 PS00079 Multicopper oxidases signature 1. 257310022481 PS00080 Multicopper oxidases signature 2. 257310022482 HMMPfam hit to PF00394, DE Multicopper oxidase, score 1.2e-17 257310022483 PS00215 Mitochondrial energy transfer proteins signature. 257310022484 HMMPfam hit to PF00394, DE Multicopper oxidase, score 3.2e-08 257310022485 PS00079 Multicopper oxidases signature 1. 257310022486 1 probable transmembrane helix predicted for BB4580 by TMHMM2.0 at aa 12-34 257310022487 Signal peptide predicted for BB4581 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.731 between residues 25 and 26; signal peptide 257310022488 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 257310022489 PS00196 Type-1 copper (blue) proteins signature. 257310022490 1 probable transmembrane helix predicted for BB4581 by TMHMM2.0 at aa 5-27 257310022491 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 257310022492 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310022493 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 257310022494 1 probable transmembrane helix predicted for BB4582 by TMHMM2.0 at aa 46-68 257310022495 HMMPfam hit to PF00034, DE Cytochrome c, score 1.3e-07 257310022496 PS00190 Cytochrome c family heme-binding site signature. 257310022497 HMMPfam hit to PF00034, DE Cytochrome c, score 0.00078 257310022498 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 257310022499 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310022500 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310022501 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310022502 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 6.2e-16 257310022503 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 3.5e-32 257310022504 HMMPfam hit to PF02737, DE 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain, score 6.5e-70 257310022505 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310022506 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310022507 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 3.3e-82 257310022508 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310022509 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310022510 active site 257310022511 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.2e-71 257310022512 PS00073 Acyl-CoA dehydrogenases signature 2. 257310022513 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 1.1e-46 257310022514 PS00072 Acyl-CoA dehydrogenases signature 1. 257310022515 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 1.7e-16 257310022516 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310022517 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310022518 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 3.8e-18 257310022519 PS01081 Bacterial regulatory proteins, tetR family signature. 257310022520 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 257310022521 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 257310022522 FMN binding site [chemical binding]; other site 257310022523 substrate binding site [chemical binding]; other site 257310022524 putative catalytic residue [active] 257310022525 HMMPfam hit to PF03060, DE 2-nitropropane dioxygenase, score 1.5e-14 257310022526 enoyl-CoA hydratase; Provisional; Region: PRK06688 257310022527 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310022528 substrate binding site [chemical binding]; other site 257310022529 oxyanion hole (OAH) forming residues; other site 257310022530 trimer interface [polypeptide binding]; other site 257310022531 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 4.1e-30 257310022532 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310022533 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310022534 substrate binding site [chemical binding]; other site 257310022535 oxyanion hole (OAH) forming residues; other site 257310022536 trimer interface [polypeptide binding]; other site 257310022537 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 257310022538 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3e-26 257310022539 PS00166 enoyl-CoA hydratase signature. 257310022540 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 257310022541 putative ATP binding site [chemical binding]; other site 257310022542 putative substrate binding site [chemical binding]; other site 257310022543 HMMPfam hit to PF01256, DE Uncharacterized protein family UPF0031, score 3.7e-38 257310022544 PS01050 Uncharacterized protein family UPF0031 signature 2. 257310022545 Signal peptide predicted for BB4592 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.987 between residues 25 and 26; signal peptide 257310022546 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 257310022547 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257310022548 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 2.9e-65 257310022549 PS01040 Bacterial extracellular substrate-binding proteins, family 5 signature. 257310022550 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 257310022551 putative active site [active] 257310022552 Zn binding site [ion binding]; other site 257310022553 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310022554 Signal peptide predicted for BB4594 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.621 between residues 29 and 30; signal peptide 257310022555 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310022556 dimer interface [polypeptide binding]; other site 257310022557 conserved gate region; other site 257310022558 putative PBP binding loops; other site 257310022559 ABC-ATPase subunit interface; other site 257310022560 6 probable transmembrane helices predicted for BB4594 by TMHMM2.0 at aa 13-30, 100-122, 135-157, 184-206, 242-264 and 288-307 257310022561 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 3.3e-10 257310022562 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 257310022563 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310022564 dimer interface [polypeptide binding]; other site 257310022565 conserved gate region; other site 257310022566 putative PBP binding loops; other site 257310022567 ABC-ATPase subunit interface; other site 257310022568 6 probable transmembrane helices predicted for BB4595 by TMHMM2.0 at aa 34-56, 106-128, 140-162, 209-231, 243-265 and 275-294 257310022569 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 2.6e-14 257310022570 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310022571 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 257310022572 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310022573 Walker A/P-loop; other site 257310022574 ATP binding site [chemical binding]; other site 257310022575 Q-loop/lid; other site 257310022576 ABC transporter signature motif; other site 257310022577 Walker B; other site 257310022578 D-loop; other site 257310022579 H-loop/switch region; other site 257310022580 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 257310022581 HMMPfam hit to PF00005, DE ABC transporter score 6.2e-56 257310022582 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022583 PS00211 ABC transporters family signature. 257310022584 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 257310022585 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310022586 Walker A/P-loop; other site 257310022587 ATP binding site [chemical binding]; other site 257310022588 Q-loop/lid; other site 257310022589 ABC transporter signature motif; other site 257310022590 Walker B; other site 257310022591 D-loop; other site 257310022592 H-loop/switch region; other site 257310022593 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 257310022594 HMMPfam hit to PF00005, DE ABC transporter score 1.1e-58 257310022595 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022596 PS00211 ABC transporters family signature. 257310022597 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 257310022598 hypothetical protein; Provisional; Region: PRK07338 257310022599 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 257310022600 metal binding site [ion binding]; metal-binding site 257310022601 dimer interface [polypeptide binding]; other site 257310022602 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 1e-45 257310022603 PS00758 ArgE / dapE / ACY1 / CPG2 / yscS family signature 1. 257310022604 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 257310022605 Part of AAA domain; Region: AAA_19; pfam13245 257310022606 Family description; Region: UvrD_C_2; pfam13538 257310022607 HMMPfam hit to PF00580, DE UvrD/REP helicase, score 1.1e-183 257310022608 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022609 primosome assembly protein PriA; Validated; Region: PRK05580 257310022610 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 257310022611 ATP binding site [chemical binding]; other site 257310022612 putative Mg++ binding site [ion binding]; other site 257310022613 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 0.041 257310022614 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022615 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 257310022616 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 257310022617 substrate binding site [chemical binding]; other site 257310022618 active site 257310022619 HMMPfam hit to PF01208, DE Uroporphyrinogen decarboxylase (URO-D), score 6.3e-165 257310022620 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022621 PS00906 Uroporphyrinogen decarboxylase signature 1. 257310022622 response regulator GlrR; Provisional; Region: PRK15115 257310022623 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 257310022624 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 257310022625 gamma subunit interface [polypeptide binding]; other site 257310022626 epsilon subunit interface [polypeptide binding]; other site 257310022627 LBP interface [polypeptide binding]; other site 257310022628 HMMPfam hit to PF02823, DE ATP synthase, Delta/Epsilon chain, beta-sandwich domain, score 4e-29 257310022629 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 257310022630 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 257310022631 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 257310022632 alpha subunit interaction interface [polypeptide binding]; other site 257310022633 Walker A motif; other site 257310022634 ATP binding site [chemical binding]; other site 257310022635 Walker B motif; other site 257310022636 inhibitor binding site; inhibition site 257310022637 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 257310022638 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00306, DE ATP synthase alpha/beta chain, C terminal domain, score 1.7e-51 257310022639 HMMPfam hit to PF00006, DE ATP synthase alpha/beta family, nucleotide-binding domain, score 2.1e-132 257310022640 PS00152 ATP synthase alpha and beta subunits signature. 257310022641 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022642 HMMPfam hit to PF02874, DE ATP synthase alpha/beta family, beta-barrel domain, score 1.7e-21 257310022643 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 257310022644 core domain interface [polypeptide binding]; other site 257310022645 delta subunit interface [polypeptide binding]; other site 257310022646 epsilon subunit interface [polypeptide binding]; other site 257310022647 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00231, DE ATP synthase, score 1.8e-120 257310022648 PS00153 ATP synthase gamma subunit signature. 257310022649 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 257310022650 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 257310022651 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 257310022652 beta subunit interaction interface [polypeptide binding]; other site 257310022653 Walker A motif; other site 257310022654 ATP binding site [chemical binding]; other site 257310022655 Walker B motif; other site 257310022656 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 257310022657 HMMPfam hit to PF00306, DE ATP synthase alpha/beta chain, C terminal domain, score 4.3e-32 257310022658 HMMPfam hit to PF00006, DE ATP synthase alpha/beta family, nucleotide-binding domain, score 6.1e-153 257310022659 PS00152 ATP synthase alpha and beta subunits signature. 257310022660 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022661 HMMPfam hit to PF02874, DE ATP synthase alpha/beta family, beta-barrel domain, score 2.5e-19 257310022662 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 257310022663 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 257310022664 HMMPfam hit to PF00213, DE ATP synthase delta (OSCP) subunit, score 2.1e-42 257310022665 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 257310022666 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 257310022667 HMMPfam hit to PF00430, DE ATP synthase B/B' CF(0), score 2.3e-25 257310022668 1 probable transmembrane helix predicted for BB4609 by TMHMM2.0 at aa 5-27 257310022669 Signal peptide predicted for BB4610 by SignalP 2.0 HMM (Signal peptide probabilty 0.954) with cleavage site probability 0.477 between residues 29 and 30; signal peptide 257310022670 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 257310022671 HMMPfam hit to PF00137, DE ATP synthase subunit C, score 1.3e-16 257310022672 2 probable transmembrane helices predicted for BB4610 by TMHMM2.0 at aa 7-29 and 53-75 257310022673 PS00605 ATP synthase c subunit signature. 257310022674 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022675 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022676 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 257310022677 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 257310022678 HMMPfam hit to PF00119, DE ATP synthase A chain, score 5.1e-39 257310022679 5 probable transmembrane helices predicted for BB4611 by TMHMM2.0 at aa 41-60, 97-119, 152-171, 221-243 and 263-285 257310022680 PS00449 ATP synthase a subunit signature. 257310022681 Signal peptide predicted for BB4612 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.932 between residues 23 and 24; signal peptide 257310022682 3 probable transmembrane helices predicted for BB4612 by TMHMM2.0 at aa 10-32, 52-74 and 78-100 257310022683 Signal peptide predicted for BB4613 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.750 between residues 31 and 32; signal peptide 257310022684 Uncharacterized conserved protein [Function unknown]; Region: COG5361 257310022685 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 257310022686 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 257310022687 enoyl-CoA hydratase; Provisional; Region: PRK05862 257310022688 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310022689 substrate binding site [chemical binding]; other site 257310022690 oxyanion hole (OAH) forming residues; other site 257310022691 trimer interface [polypeptide binding]; other site 257310022692 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 6.6e-75 257310022693 PS00166 enoyl-CoA hydratase signature. 257310022694 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 257310022695 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 257310022696 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 257310022697 PS00142 Neutral zinc metallopeptidases, zinc-binding region signature. 257310022698 HMMPfam hit to PF00595, DE PDZ domain (Also known as DHR or GLGF), score 0.036 257310022699 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 257310022700 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257310022701 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 6.2e-08 257310022702 1 probable transmembrane helix predicted for BB4616 by TMHMM2.0 at aa 7-29 257310022703 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022704 Dihydroneopterin aldolase; Region: FolB; pfam02152 257310022705 active site 257310022706 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02152, DE Dihydroneopterin aldolase, score 1.8e-18 257310022707 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 257310022708 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 257310022709 Ligand Binding Site [chemical binding]; other site 257310022710 HMMPfam hit to PF01171, DE Uncharacterized protein family UPF0021, score 0.0006 257310022711 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 257310022712 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 257310022713 dimerization interface [polypeptide binding]; other site 257310022714 NAD binding site [chemical binding]; other site 257310022715 ligand binding site [chemical binding]; other site 257310022716 catalytic site [active] 257310022717 HMMPfam hit to PF02826, DE D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain, score 1.1e-42 257310022718 PS00065 D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature. 257310022719 HMMPfam hit to PF00389, DE D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain, score 0.00086 257310022720 Signal peptide predicted for BB4620 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.995 between residues 31 and 32; signal peptide 257310022721 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 257310022722 dimerization domain [polypeptide binding]; other site 257310022723 dimer interface [polypeptide binding]; other site 257310022724 catalytic residues [active] 257310022725 PS00194 Thioredoxin family active site. 257310022726 PS00697 ATP-dependent DNA ligase AMP-binding site. 257310022727 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 257310022728 Signal peptide predicted for BB4621 by SignalP 2.0 HMM (Signal peptide probabilty 0.990) with cleavage site probability 0.790 between residues 22 and 23; signal peptide 257310022729 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 257310022730 HMMPfam hit to PF01360, DE Monooxygenase, score 5.5e-14 257310022731 PS01304 ubiH/COQ6 monooxygenase family signature. 257310022732 1 probable transmembrane helix predicted for BB4621 by TMHMM2.0 at aa 5-22 257310022733 Signal peptide predicted for BB4622 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.442 between residues 16 and 17; signal peptide 257310022734 MltA specific insert domain; Region: MltA; smart00925 257310022735 3D domain; Region: 3D; pfam06725 257310022736 HMMPfam hit to PF03562, DE MltA family, score 4.9e-119 257310022737 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022738 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 257310022739 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 257310022740 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 257310022741 substrate binding site [chemical binding]; other site 257310022742 hexamer interface [polypeptide binding]; other site 257310022743 metal binding site [ion binding]; metal-binding site 257310022744 HMMPfam hit to PF00834, DE Ribulose-phosphate 3 epimerase family, score 1.8e-132 257310022745 PS01085 Ribulose-phosphate 3-epimerase family signature 1. 257310022746 PS01086 Ribulose-phosphate 3-epimerase family signature 2. 257310022747 phosphoglycolate phosphatase; Provisional; Region: PRK13222 257310022748 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310022749 motif II; other site 257310022750 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 1e-40 257310022751 anthranilate synthase component I; Provisional; Region: PRK13565 257310022752 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 257310022753 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 257310022754 HMMPfam hit to PF00425, DE chorismate binding enzyme, score 2.2e-148 257310022755 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 257310022756 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 257310022757 glutamine binding [chemical binding]; other site 257310022758 catalytic triad [active] 257310022759 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00117, DE Glutamine amidotransferase class-I, score 9.6e-80 257310022760 PS00442 Glutamine amidotransferases class-I active site. 257310022761 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 257310022762 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 257310022763 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 257310022764 HMMPfam hit to PF02885, DE Glycosyl transferase family, helical bundle domain, score 1.8e-09 257310022765 HMMPfam hit to PF00591, DE Glycosyl transferase family, a/b domain, score 8.3e-116 257310022766 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 257310022767 active site 257310022768 ribulose/triose binding site [chemical binding]; other site 257310022769 phosphate binding site [ion binding]; other site 257310022770 substrate (anthranilate) binding pocket [chemical binding]; other site 257310022771 product (indole) binding pocket [chemical binding]; other site 257310022772 HMMPfam hit to PF00218, DE Indole-3-glycerol phosphate synthase, score 1.8e-130 257310022773 PS00614 Indole-3-glycerol phosphate synthase signature. 257310022774 short chain dehydrogenase; Provisional; Region: PRK06123 257310022775 classical (c) SDRs; Region: SDR_c; cd05233 257310022776 NAD(P) binding site [chemical binding]; other site 257310022777 active site 257310022778 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.2e-73 257310022779 PS00061 Short-chain dehydrogenases/reductases family signature. 257310022780 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 257310022781 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 257310022782 putative catalytic residue [active] 257310022783 HMMPfam hit to PF03046, DE 2-hydroxychromene-2-carboxylate isomerase family, score 6.8e-28 257310022784 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 257310022785 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 257310022786 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310022787 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 257310022788 dimerization interface [polypeptide binding]; other site 257310022789 substrate binding pocket [chemical binding]; other site 257310022790 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 9.9e-19 257310022791 PS00044 Bacterial regulatory proteins, lysR family signature. 257310022792 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 3.4e-28 257310022793 Signal peptide predicted for BB4634 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.962 between residues 27 and 28; signal peptide 257310022794 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 257310022795 HMMPfam hit to PF00753, DE Metallo-beta-lactamase superfamily, score 2.2e-09 257310022796 Signal peptide predicted for BB4635 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 24 and 25; signal peptide 257310022797 Uncharacterized conserved protein [Function unknown]; Region: COG5361 257310022798 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 257310022799 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 257310022800 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310022801 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 257310022802 HMMPfam hit to PF01662, DE Cytosolic long-chain acyl-CoA thioester hydrolase, score 3.9e-35 257310022803 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 257310022804 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 257310022805 3 probable transmembrane helices predicted for BB4637 by TMHMM2.0 at aa 38-60, 80-102 and 122-141 257310022806 Signal peptide predicted for BB4638 by SignalP 2.0 HMM (Signal peptide probabilty 0.979) with cleavage site probability 0.327 between residues 22 and 23; signal peptide 257310022807 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 257310022808 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 257310022809 NodB motif; other site 257310022810 active site 257310022811 catalytic site [active] 257310022812 metal binding site [ion binding]; metal-binding site 257310022813 PS00030 Eukaryotic RNA-binding region RNP-1 signature. 257310022814 HMMPfam hit to PF01522, DE Polysaccharide deacetylase, score 1.7e-07 257310022815 Signal peptide predicted for BB4639 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.889 between residues 24 and 25; signal peptide 257310022816 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 257310022817 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 257310022818 PS00639 Eukaryotic thiol (cysteine) proteases histidine active site. 257310022819 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 257310022820 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 257310022821 substrate binding pocket [chemical binding]; other site 257310022822 membrane-bound complex binding site; other site 257310022823 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 257310022824 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310022825 catalytic loop [active] 257310022826 iron binding site [ion binding]; other site 257310022827 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 257310022828 FAD binding pocket [chemical binding]; other site 257310022829 FAD binding motif [chemical binding]; other site 257310022830 phosphate binding motif [ion binding]; other site 257310022831 beta-alpha-beta structure motif; other site 257310022832 NAD binding pocket [chemical binding]; other site 257310022833 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 8.6e-35 257310022834 HMMPfam hit to PF00970, DE Oxidoreductase FAD-binding domain, score 8.6e-18 257310022835 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 8.8e-08 257310022836 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310022837 Domain of unknown function (DUF336); Region: DUF336; pfam03928 257310022838 HMMPfam hit to PF03928, DE Domain of unknown function (DUF336), score 2.4e-12 257310022839 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 257310022840 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310022841 NAD(P) binding site [chemical binding]; other site 257310022842 catalytic residues [active] 257310022843 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 1.5e-183 257310022844 PS00070 Aldehyde dehydrogenases cysteine active site. 257310022845 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310022846 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 257310022847 PS00217 Sugar transport proteins signature 2. 257310022848 12 probable transmembrane helices predicted for BB4645 by TMHMM2.0 at aa 5-27, 36-58, 68-85, 105-124, 134-156, 168-190, 194-211, 268-290, 305-324, 399-421, 449-471 and 478-500 257310022849 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310022850 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022851 Signal peptide predicted for BB4646 by SignalP 2.0 HMM (Signal peptide probabilty 0.833) with cleavage site probability 0.688 between residues 26 and 27; signal peptide 257310022852 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 257310022853 SepZ; Region: SepZ; pfam06066 257310022854 8 probable transmembrane helices predicted for BB4646 by TMHMM2.0 at aa 15-37, 44-66, 76-96, 103-125, 135-157, 169-186, 196-215 and 227-246 257310022855 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310022856 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310022857 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310022858 DNA-binding site [nucleotide binding]; DNA binding site 257310022859 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 257310022860 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.7e-18 257310022861 PS00043 Bacterial regulatory proteins, gntR family signature. 257310022862 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 257310022863 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 257310022864 HMMPfam hit to PF02423, DE Ornithine cyclodeaminase/mu-crystallin family, score 3.3e-22 257310022865 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 257310022866 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310022867 catalytic loop [active] 257310022868 iron binding site [ion binding]; other site 257310022869 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 2.1e-11 257310022870 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310022871 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 257310022872 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310022873 catalytic loop [active] 257310022874 iron binding site [ion binding]; other site 257310022875 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 1e-06 257310022876 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310022877 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 257310022878 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310022879 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 257310022880 DNA binding residues [nucleotide binding] 257310022881 HMMPfam hit to PF00776, , score 9.4e-08 257310022882 Signal peptide predicted for BB4654 by SignalP 2.0 HMM (Signal peptide probabilty 0.708) with cleavage site probability 0.708 between residues 19 and 20; signal peptide 257310022883 fec operon regulator FecR; Reviewed; Region: PRK09774 257310022884 FecR protein; Region: FecR; pfam04773 257310022885 Signal peptide predicted for BB4655 by SignalP 2.0 HMM (Signal peptide probabilty 0.986) with cleavage site probability 0.952 between residues 46 and 47; signal peptide 257310022886 Secretin and TonB N terminus short domain; Region: STN; smart00965 257310022887 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 257310022888 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310022889 N-terminal plug; other site 257310022890 ligand-binding site [chemical binding]; other site 257310022891 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 8.6e-11 257310022892 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 257310022893 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 257310022894 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 257310022895 Signal peptide predicted for BB4657 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.557 between residues 22 and 23; signal peptide 257310022896 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 257310022897 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 257310022898 intersubunit interface [polypeptide binding]; other site 257310022899 HMMPfam hit to PF01497, DE Periplasmic binding protein, score 1.1e-39 257310022900 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 257310022901 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 257310022902 ABC-ATPase subunit interface; other site 257310022903 dimer interface [polypeptide binding]; other site 257310022904 putative PBP binding regions; other site 257310022905 HMMPfam hit to PF01032, DE FecCD transport family, score 4.9e-93 257310022906 8 probable transmembrane helices predicted for BB4658 by TMHMM2.0 at aa 48-70, 77-96, 100-122, 127-149, 169-191, 224-246, 261-283 and 290-309 257310022907 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 257310022908 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 257310022909 Walker A/P-loop; other site 257310022910 ATP binding site [chemical binding]; other site 257310022911 Q-loop/lid; other site 257310022912 ABC transporter signature motif; other site 257310022913 Walker B; other site 257310022914 D-loop; other site 257310022915 H-loop/switch region; other site 257310022916 HMMPfam hit to PF00005, DE ABC transporter score 1e-45 257310022917 PS00017 ATP/GTP-binding site motif A (P-loop). 257310022918 PS00211 ABC transporters family signature. 257310022919 Uncharacterized conserved protein [Function unknown]; Region: COG1683 257310022920 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 257310022921 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 257310022922 HMMPfam hit to PF03171, DE 2OG-Fe(II) oxygenase superfamily, score 0.0053 257310022923 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 257310022924 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 257310022925 DNA binding site [nucleotide binding] 257310022926 active site 257310022927 HMMPfam hit to PF01035, DE 6-O-methylguanine DNA methyltransferase, DNA binding domain, score 7.2e-37 257310022928 PS00374 Methylated-DNA--protein-cysteine methyltransferase active site. 257310022929 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 257310022930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 257310022931 metal binding site [ion binding]; metal-binding site 257310022932 active site 257310022933 I-site; other site 257310022934 6 probable transmembrane helices predicted for BB4664 by TMHMM2.0 at aa 35-57, 67-89, 102-124, 128-150, 155-174 and 178-200 257310022935 PS00211 ABC transporters family signature. 257310022936 HMMPfam hit to PF00990, DE GGDEF domain, score 1.8e-45 257310022937 Signal peptide predicted for BB4665 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.981 between residues 29 and 30; signal peptide 257310022938 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 257310022939 Signal peptide predicted for BB4666 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.970 between residues 24 and 25; signal peptide 257310022940 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 257310022941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310022942 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310022943 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310022944 dimerization interface [polypeptide binding]; other site 257310022945 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.5e-15 257310022946 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.8e-13 257310022947 PS00044 Bacterial regulatory proteins, lysR family signature. 257310022948 Signal peptide predicted for BB4668 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.893 between residues 30 and 31; signal peptide 257310022949 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310022950 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 9.1e-92 257310022951 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 257310022952 HMMPfam hit to PF00753, DE Metallo-beta-lactamase superfamily, score 0.0029 257310022953 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 257310022954 Beta-lactamase; Region: Beta-lactamase; pfam00144 257310022955 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 257310022956 homodimer interface [polypeptide binding]; other site 257310022957 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310022958 catalytic residue [active] 257310022959 HMMPfam hit to PF00266, DE Aminotransferase class-V, score 5.9e-11 257310022960 Transcriptional regulators [Transcription]; Region: GntR; COG1802 257310022961 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310022962 DNA-binding site [nucleotide binding]; DNA binding site 257310022963 FCD domain; Region: FCD; pfam07729 257310022964 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 3.7e-22 257310022965 PS00043 Bacterial regulatory proteins, gntR family signature. 257310022966 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 257310022967 2 probable transmembrane helices predicted for BB4673 by TMHMM2.0 at aa 30-52 and 57-79 257310022968 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 257310022969 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 257310022970 Subunit I/III interface [polypeptide binding]; other site 257310022971 D-pathway; other site 257310022972 Subunit I/VIIc interface [polypeptide binding]; other site 257310022973 Subunit I/IV interface [polypeptide binding]; other site 257310022974 Subunit I/II interface [polypeptide binding]; other site 257310022975 Low-spin heme (heme a) binding site [chemical binding]; other site 257310022976 Subunit I/VIIa interface [polypeptide binding]; other site 257310022977 Subunit I/VIa interface [polypeptide binding]; other site 257310022978 Dimer interface; other site 257310022979 Putative water exit pathway; other site 257310022980 Binuclear center (heme a3/CuB) [ion binding]; other site 257310022981 K-pathway; other site 257310022982 Subunit I/Vb interface [polypeptide binding]; other site 257310022983 Putative proton exit pathway; other site 257310022984 Subunit I/VIb interface; other site 257310022985 Subunit I/VIc interface [polypeptide binding]; other site 257310022986 Electron transfer pathway; other site 257310022987 Subunit I/VIIIb interface [polypeptide binding]; other site 257310022988 Subunit I/VIIb interface [polypeptide binding]; other site 257310022989 12 probable transmembrane helices predicted for BB4674 by TMHMM2.0 at aa 36-58, 78-100, 121-143, 163-185, 206-228, 255-277, 284-306, 321-343, 356-378, 393-415, 428-450 and 465-487 257310022990 HMMPfam hit to PF00115, DE Cytochrome C and Quinol oxidase polypeptide I, score 2.7e-261 257310022991 PS00077 Heme-copper oxidase catalytic subunit, copper B binding region signature. 257310022992 Signal peptide predicted for BB4675 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.869 between residues 23 and 24; signal peptide 257310022993 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310022994 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310022995 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.7e-103 257310022996 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 257310022997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310022998 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 257310022999 substrate binding pocket [chemical binding]; other site 257310023000 dimerization interface [polypeptide binding]; other site 257310023001 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.1e-33 257310023002 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.1e-18 257310023003 PS00044 Bacterial regulatory proteins, lysR family signature. 257310023004 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 257310023005 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 257310023006 motif II; other site 257310023007 HMMPfam hit to PF00702, DE haloacid dehalogenase-like hydrolase, score 6e-14 257310023008 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310023009 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310023010 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 3.5e-69 257310023011 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 257310023012 CoenzymeA binding site [chemical binding]; other site 257310023013 subunit interaction site [polypeptide binding]; other site 257310023014 PHB binding site; other site 257310023015 HMMPfam hit to PF02584, DE Uncharacterized protein PaaI, COG2050, score 1.7e-05 257310023016 Signal peptide predicted for BB4680 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.522 between residues 20 and 21; signal peptide 257310023017 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023018 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.4e-70 257310023019 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 257310023020 Signal peptide predicted for BB4682 by SignalP 2.0 HMM (Signal peptide probabilty 0.926) with cleavage site probability 0.835 between residues 48 and 49; signal peptide 257310023021 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023022 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.9e-101 257310023023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310023024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310023025 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310023026 dimerization interface [polypeptide binding]; other site 257310023027 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 1.1e-25 257310023028 PS00044 Bacterial regulatory proteins, lysR family signature. 257310023029 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.2e-46 257310023030 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 257310023031 HMMPfam hit to PF02615, DE Malate/L-lactate dehydrogenase, score 5.1e-30 257310023032 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 257310023033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310023034 DNA-binding site [nucleotide binding]; DNA binding site 257310023035 FCD domain; Region: FCD; pfam07729 257310023036 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 2.4e-18 257310023037 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 257310023038 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 257310023039 putative NAD(P) binding site [chemical binding]; other site 257310023040 putative active site [active] 257310023041 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 5.7e-43 257310023042 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 257310023043 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 257310023044 active site pocket [active] 257310023045 HMMPfam hit to PF02746, DE Mandelate racemase / muconate lactonizing enzyme, N-terminal domain, score 1e-19 257310023046 PS00908 Mandelate racemase / muconate lactonizing enzyme family signature 1. 257310023047 HMMPfam hit to PF01188, DE Mandelate racemase / muconate lactonizing enzyme, C-terminal domain, score 2.4e-27 257310023048 Cupin domain; Region: Cupin_2; pfam07883 257310023049 Signal peptide predicted for BB4689 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.995 between residues 24 and 25; signal peptide 257310023050 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023051 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.8e-85 257310023052 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310023053 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310023054 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310023055 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 6.6e-09 257310023056 Signal peptide predicted for BB4691 by SignalP 2.0 HMM (Signal peptide probabilty 0.912) with cleavage site probability 0.827 between residues 29 and 30; signal peptide 257310023057 putative succinate dehydrogenase; Reviewed; Region: PRK12842 257310023058 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257310023059 Predicted oxidoreductase [General function prediction only]; Region: COG3573 257310023060 Signal peptide predicted for BB4692 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 24 and 25; signal peptide 257310023061 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023062 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.3e-68 257310023063 Amidohydrolase; Region: Amidohydro_2; pfam04909 257310023064 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 257310023065 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 257310023066 HMMPfam hit to PF00440, DE Bacterial regulatory proteins, tetR family, score 1.9e-17 257310023067 PS01081 Bacterial regulatory proteins, tetR family signature. 257310023068 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 257310023069 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257310023070 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310023071 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 257310023072 HMMPfam hit to PF02852, DE Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain, score 1.7e-44 257310023073 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 1.6e-85 257310023074 PS00076 Pyridine nucleotide-disulphide oxidoreductases class-I active site. 257310023075 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 257310023076 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 257310023077 Walker A/P-loop; other site 257310023078 ATP binding site [chemical binding]; other site 257310023079 Q-loop/lid; other site 257310023080 ABC transporter signature motif; other site 257310023081 Walker B; other site 257310023082 D-loop; other site 257310023083 H-loop/switch region; other site 257310023084 HMMPfam hit to PF00005, DE ABC transporter score 2.4e-40 257310023085 PS00211 ABC transporters family signature. 257310023086 PS00017 ATP/GTP-binding site motif A (P-loop). 257310023087 Signal peptide predicted for BB4697 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.994 between residues 28 and 29; signal peptide 257310023088 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310023089 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 257310023090 TM-ABC transporter signature motif; other site 257310023091 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 257310023092 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 257310023093 Walker A/P-loop; other site 257310023094 ATP binding site [chemical binding]; other site 257310023095 Q-loop/lid; other site 257310023096 ABC transporter signature motif; other site 257310023097 Walker B; other site 257310023098 D-loop; other site 257310023099 H-loop/switch region; other site 257310023100 HMMPfam hit to PF00005, DE ABC transporter score 7.8e-48 257310023101 PS00133 Zinc carboxypeptidases, zinc-binding region 2 signature. 257310023102 PS00017 ATP/GTP-binding site motif A (P-loop). 257310023103 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 3.9e-13 257310023104 9 probable transmembrane helices predicted for BB4697 by TMHMM2.0 at aa 7-26, 30-52, 59-78, 83-105, 112-131, 163-185, 217-239, 254-276 and 289-311 257310023105 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 257310023106 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 257310023107 TM-ABC transporter signature motif; other site 257310023108 HMMPfam hit to PF02653, DE Branched-chain amino acid transport system / permease, score 3.2e-44 257310023109 8 probable transmembrane helices predicted for BB4698 by TMHMM2.0 at aa 5-27, 34-56, 60-82, 94-116, 139-161, 190-212, 227-249 and 256-278 257310023110 Signal peptide predicted for BB4699 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 25 and 26; signal peptide 257310023111 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 257310023112 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 257310023113 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 257310023114 HMMPfam hit to PF03972, DE MmgE/PrpD family, score 4.2e-21 257310023115 acyl-CoA synthetase; Validated; Region: PRK06145 257310023116 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 257310023117 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 257310023118 acyl-activating enzyme (AAE) consensus motif; other site 257310023119 acyl-activating enzyme (AAE) consensus motif; other site 257310023120 putative AMP binding site [chemical binding]; other site 257310023121 putative active site [active] 257310023122 putative CoA binding site [chemical binding]; other site 257310023123 HMMPfam hit to PF00501, DE AMP-binding protein, score 2.2e-108 257310023124 PS00455 AMP-binding domain signature. 257310023125 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310023126 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310023127 active site 257310023128 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 5.2e-47 257310023129 PS00073 Acyl-CoA dehydrogenases signature 2. 257310023130 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 2.2e-13 257310023131 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 4.4e-13 257310023132 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 257310023133 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 257310023134 E3 interaction surface; other site 257310023135 lipoyl attachment site [posttranslational modification]; other site 257310023136 e3 binding domain; Region: E3_binding; pfam02817 257310023137 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 257310023138 HMMPfam hit to PF00198, DE 2-oxo acid dehydrogenases acyltransferase (catalytic domain), score 1.3e-67 257310023139 HMMPfam hit to PF02817, DE e3 binding domain, score 6.1e-17 257310023140 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 2.6e-19 257310023141 PS00189 2-oxo acid dehydrogenases acyltransferase lipoyl binding site. 257310023142 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310023143 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310023144 substrate binding site [chemical binding]; other site 257310023145 oxyanion hole (OAH) forming residues; other site 257310023146 trimer interface [polypeptide binding]; other site 257310023147 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3.2e-61 257310023148 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 257310023149 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 257310023150 alpha subunit interface [polypeptide binding]; other site 257310023151 TPP binding site [chemical binding]; other site 257310023152 heterodimer interface [polypeptide binding]; other site 257310023153 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 257310023154 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 257310023155 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 257310023156 tetramer interface [polypeptide binding]; other site 257310023157 TPP-binding site [chemical binding]; other site 257310023158 heterodimer interface [polypeptide binding]; other site 257310023159 phosphorylation loop region [posttranslational modification] 257310023160 HMMPfam hit to PF00676, DE Dehydrogenase E1 component, score 1.2e-83 257310023161 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310023162 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310023163 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310023164 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 2e-13 257310023165 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310023166 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310023167 substrate binding site [chemical binding]; other site 257310023168 oxyanion hole (OAH) forming residues; other site 257310023169 trimer interface [polypeptide binding]; other site 257310023170 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 1.3e-14 257310023171 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 257310023172 CoA binding domain; Region: CoA_binding_2; pfam13380 257310023173 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 257310023174 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 257310023175 HMMPfam hit to PF02629, DE CoA binding domain, score 3.4e-15 257310023176 Signal peptide predicted for BB4709 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 31 and 32; signal peptide 257310023177 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023178 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.6e-104 257310023179 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310023180 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310023181 active site 257310023182 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 1.9e-28 257310023183 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 2.4e-26 257310023184 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 1.9e-54 257310023185 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310023186 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310023187 substrate binding site [chemical binding]; other site 257310023188 oxyanion hole (OAH) forming residues; other site 257310023189 trimer interface [polypeptide binding]; other site 257310023190 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 2e-52 257310023191 PS00166 enoyl-CoA hydratase signature. 257310023192 thiolase; Provisional; Region: PRK06158 257310023193 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310023194 active site 257310023195 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 257310023196 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 257310023197 DUF35 OB-fold domain; Region: DUF35; pfam01796 257310023198 HMMPfam hit to PF01796, DE Domain of unknown function DUF35, score 3.6e-13 257310023199 PS00190 Cytochrome c family heme-binding site signature. 257310023200 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310023201 active site 2 [active] 257310023202 active site 1 [active] 257310023203 HMMPfam hit to PF01575, DE MaoC like domain, score 5.7e-11 257310023204 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310023205 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310023206 active site 257310023207 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 9.3e-20 257310023208 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 6.9e-48 257310023209 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 5.9e-49 257310023210 PS00073 Acyl-CoA dehydrogenases signature 2. 257310023211 Signal peptide predicted for BB4717 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.953 between residues 25 and 26; signal peptide 257310023212 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023213 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.3e-110 257310023214 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310023215 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310023216 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 7.8e-34 257310023217 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 257310023218 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310023219 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 257310023220 putative dimerization interface [polypeptide binding]; other site 257310023221 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.3e-51 257310023222 PS00847 MCM family signature. 257310023223 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 7.3e-14 257310023224 PS00044 Bacterial regulatory proteins, lysR family signature. 257310023225 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 257310023226 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 257310023227 inhibitor site; inhibition site 257310023228 active site 257310023229 dimer interface [polypeptide binding]; other site 257310023230 catalytic residue [active] 257310023231 HMMPfam hit to PF00701, DE Dihydrodipicolinate synthetase family, score 1.9e-10 257310023232 Transcriptional regulators [Transcription]; Region: FadR; COG2186 257310023233 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 257310023234 DNA-binding site [nucleotide binding]; DNA binding site 257310023235 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 257310023236 HMMPfam hit to PF00392, DE Bacterial regulatory proteins, gntR family, score 1.4e-11 257310023237 aspartate aminotransferase; Provisional; Region: PRK05764 257310023238 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310023239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310023240 homodimer interface [polypeptide binding]; other site 257310023241 catalytic residue [active] 257310023242 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 4.1e-66 257310023243 PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site. 257310023244 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 257310023245 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 257310023246 HMMPfam hit to PF02682, DE Uncharacterized ACR, COG2049, score 2.9e-55 257310023247 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 257310023248 HMMPfam hit to PF02626, DE Uncharacterized ACR, COG1984, score 2.5e-85 257310023249 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 257310023250 putative active site [active] 257310023251 HMMPfam hit to PF03746, DE LamB/YcsF family, score 1.8e-139 257310023252 Signal peptide predicted for BB4726 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.958 between residues 38 and 39; signal peptide 257310023253 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 257310023254 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 257310023255 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310023256 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 9.8e-80 257310023257 Signal peptide predicted for BB4727 by SignalP 2.0 HMM (Signal peptide probabilty 0.969) with cleavage site probability 0.879 between residues 41 and 42; signal peptide 257310023258 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310023259 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310023260 dimer interface [polypeptide binding]; other site 257310023261 conserved gate region; other site 257310023262 putative PBP binding loops; other site 257310023263 ABC-ATPase subunit interface; other site 257310023264 6 probable transmembrane helices predicted for BB4727 by TMHMM2.0 at aa 7-29, 103-125, 145-167, 191-213, 249-271 and 291-313 257310023265 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 7.5e-12 257310023266 Signal peptide predicted for BB4728 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.555 between residues 28 and 29; signal peptide 257310023267 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 257310023268 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310023269 dimer interface [polypeptide binding]; other site 257310023270 conserved gate region; other site 257310023271 putative PBP binding loops; other site 257310023272 ABC-ATPase subunit interface; other site 257310023273 5 probable transmembrane helices predicted for BB4728 by TMHMM2.0 at aa 13-35, 81-103, 124-146, 198-220 and 241-263 257310023274 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.0021 257310023275 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 257310023276 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310023277 Walker A/P-loop; other site 257310023278 ATP binding site [chemical binding]; other site 257310023279 Q-loop/lid; other site 257310023280 ABC transporter signature motif; other site 257310023281 Walker B; other site 257310023282 D-loop; other site 257310023283 H-loop/switch region; other site 257310023284 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 257310023285 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310023286 Walker A/P-loop; other site 257310023287 ATP binding site [chemical binding]; other site 257310023288 Q-loop/lid; other site 257310023289 ABC transporter signature motif; other site 257310023290 Walker B; other site 257310023291 D-loop; other site 257310023292 H-loop/switch region; other site 257310023293 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 257310023294 HMMPfam hit to PF00005, DE ABC transporter score 5.3e-65 257310023295 PS00017 ATP/GTP-binding site motif A (P-loop). 257310023296 PS00211 ABC transporters family signature. 257310023297 HMMPfam hit to PF00005, DE ABC transporter score 1.4e-58 257310023298 PS00017 ATP/GTP-binding site motif A (P-loop). 257310023299 PS00211 ABC transporters family signature. 257310023300 allantoate amidohydrolase; Reviewed; Region: PRK12891 257310023301 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 257310023302 active site 257310023303 metal binding site [ion binding]; metal-binding site 257310023304 dimer interface [polypeptide binding]; other site 257310023305 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 7.2e-19 257310023306 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 257310023307 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 257310023308 ligand binding site [chemical binding]; other site 257310023309 NAD binding site [chemical binding]; other site 257310023310 dimerization interface [polypeptide binding]; other site 257310023311 catalytic site [active] 257310023312 HMMPfam hit to PF00389, DE D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain, score 0.00054 257310023313 HMMPfam hit to PF02826, DE D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain, score 2.7e-62 257310023314 PS00671 D-isomer specific 2-hydroxyacid dehydrogenases signature 3. 257310023315 N-formylglutamate amidohydrolase; Region: FGase; cl01522 257310023316 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 257310023317 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 257310023318 carboxyltransferase (CT) interaction site; other site 257310023319 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 257310023320 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 257310023321 carboxyltransferase (CT) interaction site; other site 257310023322 biotinylation site [posttranslational modification]; other site 257310023323 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 2.3e-21 257310023324 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 257310023325 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257310023326 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 257310023327 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 257310023328 HMMPfam hit to PF00289, DE Carbamoyl-phosphate synthase L chain, N-terminal domain, score 2.8e-45 257310023329 HMMPfam hit to PF02786, DE Carbamoyl-phosphate synthase L chain, ATP binding domain, score 2.8e-104 257310023330 PS00866 Carbamoyl-phosphate synthase subdomain signature 1. 257310023331 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310023332 HMMPfam hit to PF02785, DE Biotin carboxylase C-terminal domain, score 4e-59 257310023333 aspartate aminotransferase; Provisional; Region: PRK06207 257310023334 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310023335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310023336 homodimer interface [polypeptide binding]; other site 257310023337 catalytic residue [active] 257310023338 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 1.9e-07 257310023339 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310023340 homotrimer interaction site [polypeptide binding]; other site 257310023341 putative active site [active] 257310023342 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 3.8e-25 257310023343 selenophosphate synthetase; Provisional; Region: PRK00943 257310023344 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 257310023345 dimerization interface [polypeptide binding]; other site 257310023346 putative ATP binding site [chemical binding]; other site 257310023347 HMMPfam hit to PF00586, DE AIR synthase related protein, N-terminal domain, score 1.3e-17 257310023348 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310023349 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02769, DE AIR synthase related protein, C-terminal domain, score 2.5e-21 257310023350 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 257310023351 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 257310023352 active site residue [active] 257310023353 PS00017 ATP/GTP-binding site motif A (P-loop). 257310023354 Signal peptide predicted for BB4740 by SignalP 2.0 HMM (Signal peptide probabilty 0.992) with cleavage site probability 0.726 between residues 22 and 23; signal peptide 257310023355 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 257310023356 4 probable transmembrane helices predicted for BB4740 by TMHMM2.0 at aa 5-27, 42-61, 68-90 and 94-112 257310023357 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 257310023358 8 probable transmembrane helices predicted for BB4741 by TMHMM2.0 at aa 20-42, 145-167, 196-218, 355-377, 398-417, 432-449, 456-475 and 490-512 257310023359 HMMPfam hit to PF03929, DE Uncharacterized iron-regulated membrane protein (DUF337), score 2e-10 257310023360 RNA polymerase factor sigma-70; Validated; Region: PRK09047 257310023361 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 257310023362 DNA binding residues [nucleotide binding] 257310023363 PS00216 Sugar transport proteins signature 1. 257310023364 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 257310023365 FecR protein; Region: FecR; pfam04773 257310023366 1 probable transmembrane helix predicted for BB4743 by TMHMM2.0 at aa 67-89 257310023367 Signal peptide predicted for BB4744 by SignalP 2.0 HMM (Signal peptide probabilty 0.986) with cleavage site probability 0.613 between residues 41 and 42; signal peptide 257310023368 Secretin and TonB N terminus short domain; Region: STN; smart00965 257310023369 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 257310023370 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310023371 N-terminal plug; other site 257310023372 ligand-binding site [chemical binding]; other site 257310023373 PS00215 Mitochondrial energy transfer proteins signature. 257310023374 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 0.0018 257310023375 This hit extended beyond the end of the feature by 1 aa and was clipped.; PS01156 TonB-dependent receptor proteins signature 2. 257310023376 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 257310023377 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 257310023378 CoenzymeA binding site [chemical binding]; other site 257310023379 subunit interaction site [polypeptide binding]; other site 257310023380 PHB binding site; other site 257310023381 HMMPfam hit to PF02584, DE Uncharacterized protein PaaI, COG2050, score 6.4e-05 257310023382 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310023383 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310023384 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 4.7e-67 257310023385 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310023386 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310023387 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310023388 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 3e-27 257310023389 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 257310023390 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 257310023391 NADP binding site [chemical binding]; other site 257310023392 dimer interface [polypeptide binding]; other site 257310023393 HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 2.2e-32 257310023394 Signal peptide predicted for BB4749 by SignalP 2.0 HMM (Signal peptide probabilty 0.939) with cleavage site probability 0.870 between residues 48 and 49; signal peptide 257310023395 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023396 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 2.8e-104 257310023397 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 257310023398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310023399 NAD(P) binding site [chemical binding]; other site 257310023400 active site 257310023401 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 4.1e-86 257310023402 PS00061 Short-chain dehydrogenases/reductases family signature. 257310023403 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310023404 active site 2 [active] 257310023405 active site 1 [active] 257310023406 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310023407 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 257310023408 active site 257310023409 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 7.2e-67 257310023410 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 7.1e-36 257310023411 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 5.1e-27 257310023412 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310023413 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310023414 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 9.6e-79 257310023415 Signal peptide predicted for BB4754 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.700 between residues 24 and 25; signal peptide 257310023416 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023417 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.1e-92 257310023418 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310023419 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 257310023420 substrate binding site [chemical binding]; other site 257310023421 oxyanion hole (OAH) forming residues; other site 257310023422 trimer interface [polypeptide binding]; other site 257310023423 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 2.3e-68 257310023424 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 257310023425 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 257310023426 active site 257310023427 FMN binding site [chemical binding]; other site 257310023428 2,4-decadienoyl-CoA binding site; other site 257310023429 catalytic residue [active] 257310023430 4Fe-4S cluster binding site [ion binding]; other site 257310023431 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 257310023432 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257310023433 HMMPfam hit to PF00724, DE NADH:flavin oxidoreductase / NADH oxidase family, score 6e-93 257310023434 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 2.4e-06 257310023435 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310023436 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310023437 substrate binding site [chemical binding]; other site 257310023438 oxyanion hole (OAH) forming residues; other site 257310023439 trimer interface [polypeptide binding]; other site 257310023440 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 4.8e-26 257310023441 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 257310023442 MarR family; Region: MarR_2; cl17246 257310023443 HMMPfam hit to PF01047, DE MarR family, score 3.7e-13 257310023444 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 257310023445 Ligand binding site [chemical binding]; other site 257310023446 Electron transfer flavoprotein domain; Region: ETF; pfam01012 257310023447 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01012, DE Electron transfer flavoprotein beta subunit, score 2.4e-120 257310023448 PS01065 Electron transfer flavoprotein beta-subunit signature. 257310023449 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 257310023450 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 257310023451 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 257310023452 HMMPfam hit to PF00766, DE Electron transfer flavoprotein alpha subunit, score 9.5e-122 257310023453 PS00696 Electron transfer flavoprotein alpha-subunit signature. 257310023454 Signal peptide predicted for BB4761 by SignalP 2.0 HMM (Signal peptide probabilty 0.970) with cleavage site probability 0.778 between residues 43 and 44; signal peptide 257310023455 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 257310023456 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310023457 N-terminal plug; other site 257310023458 ligand-binding site [chemical binding]; other site 257310023459 PS00430 TonB-dependent receptor proteins signature 1. 257310023460 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310023461 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 2.5e-30 257310023462 Signal peptide predicted for BB4762 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.606 between residues 22 and 23; signal peptide 257310023463 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023464 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 257310023465 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 5.3e-113 257310023466 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 257310023467 active site 257310023468 catalytic site [active] 257310023469 HMMPfam hit to PF01575, DE MaoC like domain, score 6.4e-10 257310023470 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 257310023471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310023472 NAD(P) binding site [chemical binding]; other site 257310023473 active site 257310023474 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2.7e-86 257310023475 PS00061 Short-chain dehydrogenases/reductases family signature. 257310023476 PS00038 Myc-type, 'helix-loop-helix' dimerization domain signature. 257310023477 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310023478 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310023479 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 1.2e-63 257310023480 lipid-transfer protein; Provisional; Region: PRK08256 257310023481 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 257310023482 active site 257310023483 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 4.6e-06 257310023484 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 1.6e-05 257310023485 PS00737 Thiolases signature 2. 257310023486 enoyl-CoA hydratase; Region: PLN02864 257310023487 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 257310023488 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 257310023489 dimer interaction site [polypeptide binding]; other site 257310023490 substrate-binding tunnel; other site 257310023491 active site 257310023492 catalytic site [active] 257310023493 substrate binding site [chemical binding]; other site 257310023494 HMMPfam hit to PF01575, DE MaoC like domain, score 2.7e-38 257310023495 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310023496 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310023497 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 3.2e-70 257310023498 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310023499 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310023500 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 4.3e-09 257310023501 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 257310023502 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310023503 putative active site [active] 257310023504 putative metal binding site [ion binding]; other site 257310023505 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 257310023506 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 257310023507 active site 257310023508 metal binding site [ion binding]; metal-binding site 257310023509 HMMPfam hit to PF00903, DE Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily, score 5.3e-14 257310023510 HMMPfam hit to PF00903, DE Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily, score 1.1e-11 257310023511 PS00935 Glyoxalase I signature 2. 257310023512 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 257310023513 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 257310023514 HMMPfam hit to PF00561, DE alpha/beta hydrolase fold, score 2.6e-18 257310023515 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 257310023516 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 257310023517 FMN-binding pocket [chemical binding]; other site 257310023518 flavin binding motif; other site 257310023519 phosphate binding motif [ion binding]; other site 257310023520 beta-alpha-beta structure motif; other site 257310023521 NAD binding pocket [chemical binding]; other site 257310023522 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 257310023523 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 257310023524 catalytic loop [active] 257310023525 iron binding site [ion binding]; other site 257310023526 HMMPfam hit to PF00111, DE 2Fe-2S iron-sulfur cluster binding domain, score 5e-09 257310023527 PS00197 2Fe-2S ferredoxins, iron-sulfur binding region signature. 257310023528 HMMPfam hit to PF00175, DE Oxidoreductase NAD-binding domain, score 3.4e-05 257310023529 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 257310023530 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 257310023531 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 257310023532 hydrophobic ligand binding site; other site 257310023533 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 1.3e-22 257310023534 Signal peptide predicted for BB4774 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.919 between residues 35 and 36; signal peptide 257310023535 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 257310023536 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 257310023537 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 0.0014 257310023538 PS00079 Multicopper oxidases signature 1. 257310023539 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 257310023540 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310023541 dimer interface [polypeptide binding]; other site 257310023542 conserved gate region; other site 257310023543 putative PBP binding loops; other site 257310023544 ABC-ATPase subunit interface; other site 257310023545 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310023546 dimer interface [polypeptide binding]; other site 257310023547 conserved gate region; other site 257310023548 putative PBP binding loops; other site 257310023549 ABC-ATPase subunit interface; other site 257310023550 12 probable transmembrane helices predicted for BB4775 by TMHMM2.0 at aa 5-27, 62-84, 97-119, 148-170, 191-213, 253-272, 303-325, 364-386, 398-420, 424-443, 502-524 and 529-551 257310023551 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.011 257310023552 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310023553 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.018 257310023554 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 257310023555 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 257310023556 Walker A/P-loop; other site 257310023557 ATP binding site [chemical binding]; other site 257310023558 Q-loop/lid; other site 257310023559 ABC transporter signature motif; other site 257310023560 Walker B; other site 257310023561 D-loop; other site 257310023562 H-loop/switch region; other site 257310023563 TOBE domain; Region: TOBE; cl01440 257310023564 HMMPfam hit to PF00005, DE ABC transporter score 9.4e-66 257310023565 PS00211 ABC transporters family signature. 257310023566 PS00017 ATP/GTP-binding site motif A (P-loop). 257310023567 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 257310023568 Signal peptide predicted for BB4777 by SignalP 2.0 HMM (Signal peptide probabilty 0.980) with cleavage site probability 0.571 between residues 18 and 19; signal peptide 257310023569 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 257310023570 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 257310023571 HMMPfam hit to PF02894, DE Oxidoreductase family, C-terminal alpha/beta domain, score 7.5e-07 257310023572 HMMPfam hit to PF01408, DE Oxidoreductase family, NAD-binding Rossmann fold, score 1.7e-38 257310023573 PS00215 Mitochondrial energy transfer proteins signature. 257310023574 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 257310023575 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 257310023576 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 257310023577 putative NAD(P) binding site [chemical binding]; other site 257310023578 putative active site [active] 257310023579 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 2e-49 257310023580 putative L-aspartate dehydrogenase; Provisional; Region: PRK13302 257310023581 Signal peptide predicted for BB4781 by SignalP 2.0 HMM (Signal peptide probabilty 0.749) with cleavage site probability 0.744 between residues 22 and 23; signal peptide 257310023582 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 257310023583 Domain of unknown function DUF108; Region: DUF108; pfam01958 257310023584 HMMPfam hit to PF01958, DE Domain of unknown function DUF108, score 2.4e-41 257310023585 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 257310023586 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310023587 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 257310023588 dimerization interface [polypeptide binding]; other site 257310023589 substrate binding pocket [chemical binding]; other site 257310023590 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 9.1e-24 257310023591 PS00044 Bacterial regulatory proteins, lysR family signature. 257310023592 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 9.7e-27 257310023593 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310023594 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 257310023595 substrate binding site [chemical binding]; other site 257310023596 Protein of unknown function (DUF521); Region: DUF521; pfam04412 257310023597 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 257310023598 substrate binding site [chemical binding]; other site 257310023599 ligand binding site [chemical binding]; other site 257310023600 Signal peptide predicted for BB4785 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.436 between residues 25 and 26; signal peptide 257310023601 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023602 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.3e-106 257310023603 PS00215 Mitochondrial energy transfer proteins signature. 257310023604 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 257310023605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310023606 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310023607 dimerization interface [polypeptide binding]; other site 257310023608 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 6e-19 257310023609 PS00044 Bacterial regulatory proteins, lysR family signature. 257310023610 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 6.1e-40 257310023611 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310023612 D-lactate dehydrogenase; Provisional; Region: PRK11183 257310023613 FAD binding domain; Region: FAD_binding_4; pfam01565 257310023614 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 257310023615 HMMPfam hit to PF01565, DE FAD binding domain, score 2.3e-17 257310023616 PS00290 Immunoglobulins and major histocompatibility complex proteins signature. 257310023617 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 257310023618 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 257310023619 active site 257310023620 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 3.1e-28 257310023621 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 0.00012 257310023622 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 1.1e-09 257310023623 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 257310023624 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 257310023625 FAD binding site [chemical binding]; other site 257310023626 substrate binding site [chemical binding]; other site 257310023627 catalytic base [active] 257310023628 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 8.1e-07 257310023629 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 4.6e-23 257310023630 Signal peptide predicted for BB4790 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.999 between residues 35 and 36; signal peptide 257310023631 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023632 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 8.3e-92 257310023633 acetylornithine deacetylase; Provisional; Region: PRK07522 257310023634 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 257310023635 metal binding site [ion binding]; metal-binding site 257310023636 putative dimer interface [polypeptide binding]; other site 257310023637 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 2.1e-61 257310023638 PS00759 ArgE / dapE / ACY1 / CPG2 / yscS family signature 2. 257310023639 Uncharacterized conserved protein [Function unknown]; Region: COG3342 257310023640 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 257310023641 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 257310023642 homotrimer interaction site [polypeptide binding]; other site 257310023643 putative active site [active] 257310023644 HMMPfam hit to PF01042, DE Endoribonuclease L-PSP, score 2.3e-19 257310023645 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 257310023646 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 257310023647 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 257310023648 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 257310023649 NADP binding site [chemical binding]; other site 257310023650 dimer interface [polypeptide binding]; other site 257310023651 HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 2.9e-36 257310023652 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310023653 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310023654 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 257310023655 putative substrate binding pocket [chemical binding]; other site 257310023656 dimerization interface [polypeptide binding]; other site 257310023657 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 4.1e-30 257310023658 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 4.9e-12 257310023659 PS00044 Bacterial regulatory proteins, lysR family signature. 257310023660 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 257310023661 CoA binding domain; Region: CoA_binding_2; pfam13380 257310023662 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 257310023663 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 257310023664 HMMPfam hit to PF02629, DE CoA binding domain, score 6.9e-07 257310023665 enoyl-CoA hydratase; Provisional; Region: PRK07658 257310023666 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310023667 substrate binding site [chemical binding]; other site 257310023668 oxyanion hole (OAH) forming residues; other site 257310023669 trimer interface [polypeptide binding]; other site 257310023670 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 3.5e-36 257310023671 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 257310023672 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 257310023673 Signal peptide predicted for BB4800 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.939 between residues 38 and 39; signal peptide 257310023674 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023675 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 4e-93 257310023676 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 257310023677 extended (e) SDRs; Region: SDR_e; cd08946 257310023678 NAD(P) binding site [chemical binding]; other site 257310023679 active site 257310023680 substrate binding site [chemical binding]; other site 257310023681 HMMPfam hit to PF01370, DE NAD dependent epimerase/dehydratase family, score 3.3e-13 257310023682 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 257310023683 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 257310023684 glutaminase active site [active] 257310023685 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 257310023686 dimer interface [polypeptide binding]; other site 257310023687 active site 257310023688 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 257310023689 dimer interface [polypeptide binding]; other site 257310023690 active site 257310023691 HMMPfam hit to PF01380, DE SIS domain, score 8.8e-34 257310023692 HMMPfam hit to PF01380, DE SIS domain, score 6.2e-35 257310023693 HMMPfam hit to PF00310, DE Glutamine amidotransferases class-II, score 1.2e-76 257310023694 PS00443 Glutamine amidotransferases class-II active site. 257310023695 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310023696 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310023697 putative DNA binding site [nucleotide binding]; other site 257310023698 putative Zn2+ binding site [ion binding]; other site 257310023699 AsnC family; Region: AsnC_trans_reg; pfam01037 257310023700 HMMPfam hit to PF01037, DE AsnC family, score 2.4e-31 257310023701 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 257310023702 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 257310023703 dimer interface [polypeptide binding]; other site 257310023704 active site 257310023705 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 1.8e-58 257310023706 PS00737 Thiolases signature 2. 257310023707 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 1.9e-69 257310023708 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 257310023709 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 257310023710 substrate binding site [chemical binding]; other site 257310023711 oxyanion hole (OAH) forming residues; other site 257310023712 trimer interface [polypeptide binding]; other site 257310023713 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 257310023714 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 257310023715 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310023716 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 257310023717 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 0.00067 257310023718 PS00030 Eukaryotic RNA-binding region RNP-1 signature. 257310023719 HMMPfam hit to PF00725, DE 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, score 1.2e-21 257310023720 HMMPfam hit to PF02737, DE 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain, score 1.4e-74 257310023721 HMMPfam hit to PF00378, DE enoyl-CoA hydratase family, score 2.8e-48 257310023722 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 257310023723 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 257310023724 FAD binding site [chemical binding]; other site 257310023725 substrate binding site [chemical binding]; other site 257310023726 catalytic residues [active] 257310023727 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 2.4e-08 257310023728 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 9.8e-32 257310023729 PS00073 Acyl-CoA dehydrogenases signature 2. 257310023730 Signal peptide predicted for BB4807 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.773 between residues 21 and 22; signal peptide 257310023731 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023732 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 8.9e-63 257310023733 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 257310023734 CoA binding domain; Region: CoA_binding_2; pfam13380 257310023735 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 257310023736 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 257310023737 HMMPfam hit to PF02629, DE CoA binding domain, score 9.7e-09 257310023738 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 257310023739 active site 257310023740 oxalacetate binding site [chemical binding]; other site 257310023741 citrylCoA binding site [chemical binding]; other site 257310023742 coenzyme A binding site [chemical binding]; other site 257310023743 catalytic triad [active] 257310023744 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310023745 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310023746 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310023747 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 0.00026 257310023748 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 257310023749 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 257310023750 molybdopterin cofactor binding site [chemical binding]; other site 257310023751 substrate binding site [chemical binding]; other site 257310023752 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 257310023753 molybdopterin cofactor binding site; other site 257310023754 HMMPfam hit to PF00384, DE Molybdopterin oxidoreductase, score 2.5e-102 257310023755 HMMPfam hit to PF01568, DE Molydopterin dinucleotide binding domain, score 1e-27 257310023756 Signal peptide predicted for BB4812 by SignalP 2.0 HMM (Signal peptide probabilty 0.798) with cleavage site probability 0.237 between residues 39 and 40; signal peptide 257310023757 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 0.00042 257310023758 10 probable transmembrane helices predicted for BB4812 by TMHMM2.0 at aa 13-35, 45-67, 74-96, 106-123, 130-147, 157-176, 189-208, 218-237, 244-266 and 271-290 257310023759 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 3e-08 257310023760 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257310023761 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 1.6e-08 257310023762 PS00041 Bacterial regulatory proteins, araC family signature. 257310023763 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.0035 257310023764 PS00356 Bacterial regulatory proteins, lacI family signature. 257310023765 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 257310023766 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 257310023767 HMMPfam hit to PF00534, DE Glycosyl transferases group 1, score 2.4e-26 257310023768 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 257310023769 Signal peptide predicted for BB4815 by SignalP 2.0 HMM (Signal peptide probabilty 0.916) with cleavage site probability 0.892 between residues 20 and 21; signal peptide 257310023770 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 257310023771 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 257310023772 HMMPfam hit to PF03720, DE UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain, score 6.3e-27 257310023773 HMMPfam hit to PF00984, DE UDP-glucose/GDP-mannose dehydrogenase family, central domain, score 3e-48 257310023774 HMMPfam hit to PF03721, DE UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain, score 3.9e-90 257310023775 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310023776 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 257310023777 putative substrate translocation pore; other site 257310023778 HMMPfam hit to PF00083, DE Sugar (and other) transporter score 0.0082 257310023779 14 probable transmembrane helices predicted for BB4816 by TMHMM2.0 at aa 33-55, 65-87, 96-115, 119-141, 154-176, 180-202, 214-233, 238-256, 277-299, 309-331, 343-365, 369-388, 409-431 and 436-455 257310023780 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 257310023781 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 257310023782 Substrate binding site; other site 257310023783 Mg++ binding site; other site 257310023784 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 257310023785 active site 257310023786 substrate binding site [chemical binding]; other site 257310023787 CoA binding site [chemical binding]; other site 257310023788 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 51 257310023789 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 1.5e+02 257310023790 PS00101 Hexapeptide-repeat containing-transferases signature. 257310023791 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 2.6e+02 257310023792 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 1.1e+02 257310023793 HMMPfam hit to PF00132, DE Bacterial transferase hexapeptide (four repeats), score 0.59 257310023794 HMMPfam hit to PF00483, DE Nucleotidyl transferase, score 2e-06 257310023795 Signal peptide predicted for BB4819 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.752 between residues 33 and 34; signal peptide 257310023796 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 257310023797 Signal peptide predicted for BB4821 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.724 between residues 35 and 36; signal peptide 257310023798 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 257310023799 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 257310023800 Cu(I) binding site [ion binding]; other site 257310023801 HMMPfam hit to PF02630, DE SCO1/SenC, score 1e-41 257310023802 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310023803 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 257310023804 UbiA prenyltransferase family; Region: UbiA; pfam01040 257310023805 9 probable transmembrane helices predicted for BB4822 by TMHMM2.0 at aa 21-43, 47-69, 90-112, 117-137, 144-163, 173-192, 213-235, 240-259 and 272-294 257310023806 HMMPfam hit to PF01040, DE UbiA prenyltransferase family, score 3.7e-70 257310023807 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 257310023808 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 257310023809 HMMPfam hit to PF02628, DE Cytochrome oxidase assembly protein, score 9.4e-08 257310023810 8 probable transmembrane helices predicted for BB4823 by TMHMM2.0 at aa 12-31, 74-96, 109-131, 136-158, 179-201, 244-266, 278-300 and 304-326 257310023811 Signal peptide predicted for BB4824 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.929 between residues 30 and 31; signal peptide 257310023812 1 probable transmembrane helix predicted for BB4824 by TMHMM2.0 at aa 13-35 257310023813 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 257310023814 1 probable transmembrane helix predicted for BB4825 by TMHMM2.0 at aa 199-218 257310023815 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 257310023816 Signal peptide predicted for BB4826 by SignalP 2.0 HMM (Signal peptide probabilty 0.993) with cleavage site probability 0.836 between residues 19 and 20; signal peptide 257310023817 2 probable transmembrane helices predicted for BB4826 by TMHMM2.0 at aa 4-23 and 36-58 257310023818 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 257310023819 Subunit III/VIIa interface [polypeptide binding]; other site 257310023820 Phospholipid binding site [chemical binding]; other site 257310023821 Subunit I/III interface [polypeptide binding]; other site 257310023822 Subunit III/VIb interface [polypeptide binding]; other site 257310023823 Subunit III/VIa interface; other site 257310023824 Subunit III/Vb interface [polypeptide binding]; other site 257310023825 HMMPfam hit to PF00510, DE Cytochrome c oxidase subunit III, score 1.7e-57 257310023826 6 probable transmembrane helices predicted for BB4827 by TMHMM2.0 at aa 46-68, 89-111, 152-174, 187-209, 229-251 and 271-290 257310023827 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 257310023828 2 probable transmembrane helices predicted for BB4828 by TMHMM2.0 at aa 13-29 and 44-66 257310023829 Signal peptide predicted for BB4829 by SignalP 2.0 HMM (Signal peptide probabilty 0.987) with cleavage site probability 0.527 between residues 32 and 33; signal peptide 257310023830 1 probable transmembrane helix predicted for BB4829 by TMHMM2.0 at aa 12-34 257310023831 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 257310023832 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 257310023833 Subunit I/III interface [polypeptide binding]; other site 257310023834 D-pathway; other site 257310023835 Subunit I/VIIc interface [polypeptide binding]; other site 257310023836 Subunit I/IV interface [polypeptide binding]; other site 257310023837 Subunit I/II interface [polypeptide binding]; other site 257310023838 Low-spin heme (heme a) binding site [chemical binding]; other site 257310023839 Subunit I/VIIa interface [polypeptide binding]; other site 257310023840 Subunit I/VIa interface [polypeptide binding]; other site 257310023841 Dimer interface; other site 257310023842 Putative water exit pathway; other site 257310023843 Binuclear center (heme a3/CuB) [ion binding]; other site 257310023844 K-pathway; other site 257310023845 Subunit I/Vb interface [polypeptide binding]; other site 257310023846 Putative proton exit pathway; other site 257310023847 Subunit I/VIb interface; other site 257310023848 Subunit I/VIc interface [polypeptide binding]; other site 257310023849 Electron transfer pathway; other site 257310023850 Subunit I/VIIIb interface [polypeptide binding]; other site 257310023851 Subunit I/VIIb interface [polypeptide binding]; other site 257310023852 12 probable transmembrane helices predicted for BB4830 by TMHMM2.0 at aa 40-62, 82-104, 125-147, 167-189, 210-232, 258-280, 287-309, 324-346, 359-381, 396-418, 435-457 and 472-494 257310023853 HMMPfam hit to PF00115, DE Cytochrome C and Quinol oxidase polypeptide I, score 4.5e-263 257310023854 PS00077 Heme-copper oxidase catalytic subunit, copper B binding region signature. 257310023855 Signal peptide predicted for BB4831 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.453 between residues 21 and 22; signal peptide 257310023856 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 257310023857 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 257310023858 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 257310023859 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 257310023860 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 257310023861 HMMPfam hit to PF00034, DE Cytochrome c, score 1.5e-07 257310023862 PS00190 Cytochrome c family heme-binding site signature. 257310023863 HMMPfam hit to PF00116, DE Cytochrome C oxidase subunit II, periplasmic domain, score 7.2e-55 257310023864 PS00078 CO II and nitrous oxide reductase dinuclear copper centers signature. 257310023865 HMMPfam hit to PF02790, DE Cytochrome C oxidase subunit II, transmembrane domain, score 2.9e-05 257310023866 3 probable transmembrane helices predicted for BB4831 by TMHMM2.0 at aa 7-24, 49-71 and 92-114 257310023867 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 257310023868 nudix motif; other site 257310023869 PS00215 Mitochondrial energy transfer proteins signature. 257310023870 HMMPfam hit to PF00293, DE NUDIX domain, score 1.6e-12 257310023871 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 257310023872 Signal peptide predicted for BB4833 by SignalP 2.0 HMM (Signal peptide probabilty 0.658) with cleavage site probability 0.347 between residues 24 and 25; signal peptide 257310023873 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 257310023874 flexible hinge region; other site 257310023875 HMMPfam hit to PF00027, DE Cyclic nucleotide-binding domain, score 2.5e-12 257310023876 PS00308 Legume lectins alpha-chain signature. 257310023877 HMMPfam hit to PF00999, DE Sodium/hydrogen exchanger family, score 9.3e-67 257310023878 12 probable transmembrane helices predicted for BB4833 by TMHMM2.0 at aa 4-23, 30-52, 72-91, 98-120, 125-147, 168-187, 202-224, 245-267, 282-304, 317-339, 359-376 and 389-408 257310023879 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 257310023880 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 257310023881 active site 257310023882 metal binding site [ion binding]; metal-binding site 257310023883 hexamer interface [polypeptide binding]; other site 257310023884 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 7.6e-15 257310023885 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 257310023886 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 257310023887 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 257310023888 DNA binding residues [nucleotide binding] 257310023889 HMMPfam hit to PF00140, DE Sigma-70 factor, region 1.2, score 1.8e-75 257310023890 PS00716 Sigma-70 factors family signature 2. 257310023891 PS00715 Sigma-70 factors family signature 1. 257310023892 2 probable transmembrane helices predicted for BB4836 by TMHMM2.0 at aa 6-28 and 49-71 257310023893 S-formylglutathione hydrolase; Region: PLN02442 257310023894 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 257310023895 HMMPfam hit to PF00756, DE esterase, score 2.1e-74 257310023896 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 257310023897 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 257310023898 substrate binding site [chemical binding]; other site 257310023899 catalytic Zn binding site [ion binding]; other site 257310023900 NAD binding site [chemical binding]; other site 257310023901 structural Zn binding site [ion binding]; other site 257310023902 dimer interface [polypeptide binding]; other site 257310023903 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00107, DE Zinc-binding dehydrogenase, score 1.1e-135 257310023904 PS00059 Zinc-containing alcohol dehydrogenases signature. 257310023905 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 257310023906 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 257310023907 active site 257310023908 dimer interface [polypeptide binding]; other site 257310023909 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 257310023910 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 257310023911 active site 257310023912 FMN binding site [chemical binding]; other site 257310023913 substrate binding site [chemical binding]; other site 257310023914 3Fe-4S cluster binding site [ion binding]; other site 257310023915 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 257310023916 domain interface; other site 257310023917 HMMPfam hit to PF01645, DE Conserved region in glutamate synthase, score 1.7e-232 257310023918 HMMPfam hit to PF01493, DE Domain of unknown function DUF14, score 3.9e-86 257310023919 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 257310023920 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 257310023921 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 257310023922 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 3.5e-27 257310023923 Signal peptide predicted for BB4842 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.964 between residues 28 and 29; signal peptide 257310023924 OmpW family; Region: OmpW; cl17427 257310023925 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF03922, DE OmpW family, score 8.7e-70 257310023926 Signal peptide predicted for BB4843 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.838 between residues 25 and 26; signal peptide 257310023927 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310023928 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.2e-123 257310023929 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 257310023930 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 257310023931 Walker A/P-loop; other site 257310023932 ATP binding site [chemical binding]; other site 257310023933 Q-loop/lid; other site 257310023934 ABC transporter signature motif; other site 257310023935 Walker B; other site 257310023936 D-loop; other site 257310023937 H-loop/switch region; other site 257310023938 HMMPfam hit to PF00005, DE ABC transporter score 1.8e-54 257310023939 PS00017 ATP/GTP-binding site motif A (P-loop). 257310023940 PS00211 ABC transporters family signature. 257310023941 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 257310023942 Permease; Region: Permease; pfam02405 257310023943 HMMPfam hit to PF02405, DE Domain of unknown function DUF140, score 1.2e-92 257310023944 6 probable transmembrane helices predicted for BB4845 by TMHMM2.0 at aa 20-38, 51-73, 88-110, 158-180, 200-219 and 240-259 257310023945 Signal peptide predicted for BB4846 by SignalP 2.0 HMM (Signal peptide probabilty 0.995) with cleavage site probability 0.459 between residues 37 and 38; signal peptide 257310023946 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 257310023947 mce related protein; Region: MCE; pfam02470 257310023948 1 probable transmembrane helix predicted for BB4846 by TMHMM2.0 at aa 7-29 257310023949 HMMPfam hit to PF02470, DE mce related protein, score 7.9e-35 257310023950 VacJ like lipoprotein; Region: VacJ; cl01073 257310023951 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310023952 Signal peptide predicted for BB4848 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.997 between residues 26 and 27; signal peptide 257310023953 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 257310023954 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 257310023955 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 257310023956 Walker A/P-loop; other site 257310023957 ATP binding site [chemical binding]; other site 257310023958 Q-loop/lid; other site 257310023959 ABC transporter signature motif; other site 257310023960 Walker B; other site 257310023961 D-loop; other site 257310023962 H-loop/switch region; other site 257310023963 HMMPfam hit to PF00005, DE ABC transporter score 1e-51 257310023964 PS00017 ATP/GTP-binding site motif A (P-loop). 257310023965 PS00211 ABC transporters family signature. 257310023966 ABC-2 type transporter; Region: ABC2_membrane; cl17235 257310023967 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 257310023968 HMMPfam hit to PF01061, DE ABC-2 type transporter score 0.00018 257310023969 7 probable transmembrane helices predicted for BB4850 by TMHMM2.0 at aa 39-61, 66-88, 98-117, 124-146, 156-178, 191-213 and 242-264 257310023970 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 257310023971 HMMPfam hit to PF01722, DE BolA-like protein, score 5.3e-22 257310023972 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 257310023973 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 257310023974 hinge; other site 257310023975 active site 257310023976 HMMPfam hit to PF00275, DE EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase), score 4.1e-136 257310023977 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 257310023978 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 257310023979 HMMPfam hit to PF01634, DE ATP phosphoribosyltransferase, score 1.5e-50 257310023980 PS01316 ATP phosphoribosyltransferase signature. 257310023981 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 257310023982 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 257310023983 NAD binding site [chemical binding]; other site 257310023984 dimerization interface [polypeptide binding]; other site 257310023985 product binding site; other site 257310023986 substrate binding site [chemical binding]; other site 257310023987 zinc binding site [ion binding]; other site 257310023988 catalytic residues [active] 257310023989 HMMPfam hit to PF00815, DE Histidinol dehydrogenase, score 6.6e-181 257310023990 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 257310023991 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310023992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310023993 homodimer interface [polypeptide binding]; other site 257310023994 catalytic residue [active] 257310023995 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 2.2e-24 257310023996 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 257310023997 putative active site pocket [active] 257310023998 4-fold oligomerization interface [polypeptide binding]; other site 257310023999 metal binding residues [ion binding]; metal-binding site 257310024000 3-fold/trimer interface [polypeptide binding]; other site 257310024001 HMMPfam hit to PF00475, DE Imidazoleglycerol-phosphate dehydratase, score 1.7e-89 257310024002 PS00954 Imidazoleglycerol-phosphate dehydratase signature 1. 257310024003 PS00955 Imidazoleglycerol-phosphate dehydratase signature 2. 257310024004 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 257310024005 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 257310024006 putative active site [active] 257310024007 oxyanion strand; other site 257310024008 catalytic triad [active] 257310024009 HMMPfam hit to PF00117, DE Glutamine amidotransferase class-I, score 5.6e-25 257310024010 PS00442 Glutamine amidotransferases class-I active site. 257310024011 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 257310024012 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 257310024013 catalytic residues [active] 257310024014 HMMPfam hit to PF00977, DE Histidine biosynthesis protein, score 2.5e-87 257310024015 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 257310024016 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 257310024017 substrate binding site [chemical binding]; other site 257310024018 glutamase interaction surface [polypeptide binding]; other site 257310024019 HMMPfam hit to PF00977, DE Histidine biosynthesis protein, score 2.7e-136 257310024020 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 257310024021 HMMPfam hit to PF01502, DE Phosphoribosyl-AMP cyclohydrolase, score 6.6e-51 257310024022 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 257310024023 metal binding site [ion binding]; metal-binding site 257310024024 HMMPfam hit to PF01503, DE Phosphoribosyl-ATP pyrophosphohydrolase, score 8e-31 257310024025 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 257310024026 nucleotide binding site/active site [active] 257310024027 HIT family signature motif; other site 257310024028 catalytic residue [active] 257310024029 HMMPfam hit to PF01230, DE HIT family, score 2.2e-39 257310024030 PS00892 HIT family signature. 257310024031 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 257310024032 HMMPfam hit to PF02416, DE mttA/Hcf106 family, score 6.8e-12 257310024033 1 probable transmembrane helix predicted for BB4863 by TMHMM2.0 at aa 4-21 257310024034 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 257310024035 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 257310024036 HMMPfam hit to PF00902, DE MttB family UPF0032, score 3.4e-75 257310024037 6 probable transmembrane helices predicted for BB4865 by TMHMM2.0 at aa 34-56, 84-106, 118-140, 167-189, 201-218 and 222-241 257310024038 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 257310024039 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 257310024040 non-specific DNA binding site [nucleotide binding]; other site 257310024041 salt bridge; other site 257310024042 sequence-specific DNA binding site [nucleotide binding]; other site 257310024043 HMMPfam hit to PF01381, DE Helix-turn-helix, score 2.2e-08 257310024044 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 257310024045 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 257310024046 protein binding site [polypeptide binding]; other site 257310024047 HMMPfam hit to PF00595, DE PDZ domain (Also known as DHR or GLGF), score 1.1e-06 257310024048 HMMPfam hit to PF00089, DE Trypsin, score 2.6e-25 257310024049 Uncharacterized conserved protein [Function unknown]; Region: COG0327 257310024050 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 257310024051 HMMPfam hit to PF01784, DE Domain of unknown function DUF34, score 1.9e-63 257310024052 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 257310024053 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 257310024054 HMMPfam hit to PF01741, DE Large-conductance mechanosensitive channel, MscL, score 2e-49 257310024055 3 probable transmembrane helices predicted for BB4869 by TMHMM2.0 at aa 20-37, 44-66 and 88-110 257310024056 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 257310024057 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 257310024058 [2Fe-2S] cluster binding site [ion binding]; other site 257310024059 1 probable transmembrane helix predicted for BB4870 by TMHMM2.0 at aa 26-48 257310024060 HMMPfam hit to PF00355, DE Rieske [2Fe-2S] domain, score 2.5e-06 257310024061 PS00199 Rieske iron-sulfur protein signature 1. 257310024062 PS00200 Rieske iron-sulfur protein signature 2. 257310024063 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 257310024064 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 257310024065 Qi binding site; other site 257310024066 intrachain domain interface; other site 257310024067 interchain domain interface [polypeptide binding]; other site 257310024068 heme bH binding site [chemical binding]; other site 257310024069 heme bL binding site [chemical binding]; other site 257310024070 Qo binding site; other site 257310024071 interchain domain interface [polypeptide binding]; other site 257310024072 intrachain domain interface; other site 257310024073 Qi binding site; other site 257310024074 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 257310024075 Qo binding site; other site 257310024076 HMMPfam hit to PF00033, DE Cytochrome b(N-terminal)/b6/petB, score 1.7e-84 257310024077 11 probable transmembrane helices predicted for BB4871 by TMHMM2.0 at aa 41-63, 96-118, 125-147, 157-179, 192-214, 249-271, 315-333, 337-354, 361-380, 395-413 and 420-442 257310024078 PS00192 Cytochrome b/b6 heme-ligand signature. 257310024079 Signal peptide predicted for BB4872 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.992 between residues 22 and 23; signal peptide 257310024080 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 257310024081 2 probable transmembrane helices predicted for BB4872 by TMHMM2.0 at aa 7-29 and 256-278 257310024082 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02167, DE Cytochrome C1 family, score 1.4e-06 257310024083 PS00190 Cytochrome c family heme-binding site signature. 257310024084 stringent starvation protein A; Provisional; Region: sspA; PRK09481 257310024085 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 257310024086 C-terminal domain interface [polypeptide binding]; other site 257310024087 putative GSH binding site (G-site) [chemical binding]; other site 257310024088 dimer interface [polypeptide binding]; other site 257310024089 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 257310024090 dimer interface [polypeptide binding]; other site 257310024091 N-terminal domain interface [polypeptide binding]; other site 257310024092 HMMPfam hit to PF02798, DE Glutathione S-transferase, N-terminal domain, score 1.7e-14 257310024093 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 257310024094 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 257310024095 Signal peptide predicted for BB4876 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.632 between residues 24 and 25; signal peptide 257310024096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310024097 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 3.5e-76 257310024098 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 257310024099 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 257310024100 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 257310024101 active site 257310024102 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310024103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310024104 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 257310024105 putative dimerization interface [polypeptide binding]; other site 257310024106 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.1e-27 257310024107 PS00044 Bacterial regulatory proteins, lysR family signature. 257310024108 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.5e-35 257310024109 thioredoxin reductase; Provisional; Region: PRK10262 257310024110 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 257310024111 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 257310024112 HMMPfam hit to PF00070, DE Pyridine nucleotide-disulphide oxidoreductase, score 6.4e-63 257310024113 PS00573 Pyridine nucleotide-disulphide oxidoreductases class-II active site. 257310024114 Transcriptional regulator [Transcription]; Region: IclR; COG1414 257310024115 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 257310024116 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310024117 HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 3.3e-07 257310024118 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 257310024119 active site residue [active] 257310024120 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 257310024121 active site residue [active] 257310024122 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 257310024123 active site residue [active] 257310024124 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 257310024125 HMMPfam hit to PF00581, DE Rhodanese-like domain, score 6.7e-13 257310024126 HMMPfam hit to PF00581, DE Rhodanese-like domain, score 0.00039 257310024127 PS00380 Rhodanese signature 1. 257310024128 PS00213 Lipocalin signature. 257310024129 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 257310024130 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310024131 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310024132 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 6.7e-55 257310024133 Signal peptide predicted for BB4885 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.754 between residues 30 and 31; signal peptide 257310024134 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310024135 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310024136 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1e-93 257310024137 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 257310024138 CoA-transferase family III; Region: CoA_transf_3; pfam02515 257310024139 HMMPfam hit to PF02515, DE CAIB/BAIF family, score 7.5e-21 257310024140 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 257310024141 catalytic residues [active] 257310024142 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 257310024143 Signal peptide predicted for BB4889 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.971 between residues 25 and 26; signal peptide 257310024144 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310024145 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.5e-102 257310024146 Signal peptide predicted for BB4890 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 34 and 35; signal peptide 257310024147 Pertussis toxin, subunit 1; Region: Pertussis_S1; pfam02917 257310024148 HMMPfam hit to PF02917, DE Pertussis toxin, subunit 1, score 6.3e-174 257310024149 Signal peptide predicted for BB4891 by SignalP 2.0 HMM (Signal peptide probabilty 0.998) with cleavage site probability 0.991 between residues 27 and 28; signal peptide 257310024150 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 257310024151 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 257310024152 HMMPfam hit to PF03440, DE Aerolysin/Pertussis toxin (APT) domain, score 3.8e-67 257310024153 HMMPfam hit to PF02918, DE Pertussis toxin, subunit 2 and 3, C-terminal domain, score 6.7e-90 257310024154 Signal peptide predicted for BB4892 by SignalP 2.0 HMM (Signal peptide probabilty 0.993) with cleavage site probability 0.993 between residues 42 and 43; signal peptide 257310024155 Pertussis toxin S4 subunit; Region: Pertus-S4-tox; pfam09275 257310024156 Signal peptide predicted for BB4893 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.934 between residues 21 and 22; signal peptide 257310024157 Pertussis toxin S5 subunit; Region: Pertus-S5-tox; pfam09276 257310024158 Signal peptide predicted for BB4894 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.937 between residues 28 and 29; signal peptide 257310024159 Aerolysin/Pertussis toxin (APT) domain; Region: APT; pfam03440 257310024160 Pertussis toxin, subunit 2 and 3, C-terminal domain; Region: Pertussis_S2S3; pfam02918 257310024161 HMMPfam hit to PF03440, DE Aerolysin/Pertussis toxin (APT) domain, score 7.4e-60 257310024162 HMMPfam hit to PF02918, DE Pertussis toxin, subunit 2 and 3, C-terminal domain, score 4.4e-77 257310024163 TrbC/VIRB2 family; Region: TrbC; pfam04956 257310024164 Signal peptide predicted for BB4895 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.991 between residues 31 and 32; signal peptide 257310024165 3 probable transmembrane helices predicted for BB4895 by TMHMM2.0 at aa 15-37, 44-66 and 81-101 257310024166 Type IV secretory pathway, VirB3-like protein; Region: VirB3; pfam05101 257310024167 1 probable transmembrane helix predicted for BB4896 by TMHMM2.0 at aa 29-51 257310024168 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 257310024169 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 257310024170 HMMPfam hit to PF03135, DE CagE, TrbE, VirB family, component of type IV transporter system, score 1.3e-63 257310024171 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024172 Signal peptide predicted for BB4898 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.807 between residues 24 and 25; signal peptide 257310024173 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 257310024174 5 probable transmembrane helices predicted for BB4898 by TMHMM2.0 at aa 117-139, 228-250, 255-277, 290-312 and 332-354 257310024175 VirB8 protein; Region: VirB8; pfam04335 257310024176 1 probable transmembrane helix predicted for BB4899 by TMHMM2.0 at aa 39-61 257310024177 Signal peptide predicted for BB4900 by SignalP 2.0 HMM (Signal peptide probabilty 0.974) with cleavage site probability 0.695 between residues 20 and 21; signal peptide 257310024178 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 257310024179 VirB7 interaction site; other site 257310024180 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 257310024181 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310024182 HMMPfam hit to PF03743, DE Bacterial conjugation TrbI-like protein, score 5.9e-68 257310024183 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 257310024184 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 257310024185 Walker A motif; other site 257310024186 hexamer interface [polypeptide binding]; other site 257310024187 ATP binding site [chemical binding]; other site 257310024188 Walker B motif; other site 257310024189 HMMPfam hit to PF00437, DE Type II/IV secretion system protein, score 8.4e-06 257310024190 PS00675 Sigma-54 interaction domain ATP-binding region A signature. 257310024191 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024192 EamA-like transporter family; Region: EamA; pfam00892 257310024193 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 3.8e-10 257310024194 10 probable transmembrane helices predicted for BB4903 by TMHMM2.0 at aa 44-66, 76-98, 111-133, 138-160, 167-184, 199-216, 229-251, 261-283, 290-309 and 314-333 257310024195 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 3.8e-14 257310024196 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257310024197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 257310024198 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 7e-05 257310024199 PS00041 Bacterial regulatory proteins, araC family signature. 257310024200 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 1.5e-07 257310024201 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 257310024202 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 257310024203 5 probable transmembrane helices predicted for BB4906 by TMHMM2.0 at aa 75-97, 104-126, 176-198, 205-227 and 260-282 257310024204 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 257310024205 G1 box; other site 257310024206 GTP/Mg2+ binding site [chemical binding]; other site 257310024207 G2 box; other site 257310024208 Switch I region; other site 257310024209 G3 box; other site 257310024210 Switch II region; other site 257310024211 G4 box; other site 257310024212 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 257310024213 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024214 PS00225 Crystallins beta and gamma 'Greek key' motif signature. 257310024215 Signal peptide predicted for BB4908 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.913 between residues 27 and 28; signal peptide 257310024216 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 257310024217 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 257310024218 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 1.3e-46 257310024219 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310024220 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310024221 dimer interface [polypeptide binding]; other site 257310024222 conserved gate region; other site 257310024223 putative PBP binding loops; other site 257310024224 ABC-ATPase subunit interface; other site 257310024225 6 probable transmembrane helices predicted for BB4909 by TMHMM2.0 at aa 23-45, 116-135, 148-170, 199-221, 255-277 and 306-328 257310024226 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 5.1e-05 257310024227 Signal peptide predicted for BB4910 by SignalP 2.0 HMM (Signal peptide probabilty 0.798) with cleavage site probability 0.797 between residues 43 and 44; signal peptide 257310024228 dipeptide transporter; Provisional; Region: PRK10913 257310024229 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310024230 dimer interface [polypeptide binding]; other site 257310024231 conserved gate region; other site 257310024232 putative PBP binding loops; other site 257310024233 ABC-ATPase subunit interface; other site 257310024234 6 probable transmembrane helices predicted for BB4910 by TMHMM2.0 at aa 26-48, 101-123, 130-152, 167-184, 219-241 and 274-296 257310024235 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.9e-06 257310024236 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310024237 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 257310024238 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310024239 Walker A/P-loop; other site 257310024240 ATP binding site [chemical binding]; other site 257310024241 Q-loop/lid; other site 257310024242 ABC transporter signature motif; other site 257310024243 Walker B; other site 257310024244 D-loop; other site 257310024245 H-loop/switch region; other site 257310024246 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 257310024247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310024248 Walker A/P-loop; other site 257310024249 ATP binding site [chemical binding]; other site 257310024250 Q-loop/lid; other site 257310024251 ABC transporter signature motif; other site 257310024252 Walker B; other site 257310024253 D-loop; other site 257310024254 H-loop/switch region; other site 257310024255 HMMPfam hit to PF00005, DE ABC transporter score 2.7e-58 257310024256 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024257 PS00211 ABC transporters family signature. 257310024258 HMMPfam hit to PF00005, DE ABC transporter score 2.6e-69 257310024259 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024260 PS00211 ABC transporters family signature. 257310024261 Signal peptide predicted for BB4912 by SignalP 2.0 HMM (Signal peptide probabilty 0.997) with cleavage site probability 0.971 between residues 31 and 32; signal peptide 257310024262 Repair protein; Region: Repair_PSII; pfam04536 257310024263 2 probable transmembrane helices predicted for BB4912 by TMHMM2.0 at aa 200-222 and 229-251 257310024264 Signal peptide predicted for BB4913 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.770 between residues 29 and 30; signal peptide 257310024265 LemA family; Region: LemA; pfam04011 257310024266 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310024267 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 257310024268 DEAD-like helicases superfamily; Region: DEXDc; smart00487 257310024269 ATP binding site [chemical binding]; other site 257310024270 Mg++ binding site [ion binding]; other site 257310024271 motif III; other site 257310024272 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 257310024273 nucleotide binding region [chemical binding]; other site 257310024274 ATP-binding site [chemical binding]; other site 257310024275 HMMPfam hit to PF00270, DE DEAD/DEAH box helicase, score 8e-79 257310024276 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024277 PS00039 DEAD-box subfamily ATP-dependent helicases signature. 257310024278 HMMPfam hit to PF00271, DE Helicase conserved C-terminal domain, score 2.7e-29 257310024279 LysE type translocator; Region: LysE; cl00565 257310024280 Signal peptide predicted for BB4915 by SignalP 2.0 HMM (Signal peptide probabilty 0.990) with cleavage site probability 0.432 between residues 24 and 25; signal peptide 257310024281 6 probable transmembrane helices predicted for BB4915 by TMHMM2.0 at aa 10-32, 44-66, 70-87, 117-139, 149-171 and 184-206 257310024282 HMMPfam hit to PF01810, DE LysE type translocator, score 2.2e-15 257310024283 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 257310024284 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 257310024285 G1 box; other site 257310024286 putative GEF interaction site [polypeptide binding]; other site 257310024287 GTP/Mg2+ binding site [chemical binding]; other site 257310024288 Switch I region; other site 257310024289 G2 box; other site 257310024290 G3 box; other site 257310024291 Switch II region; other site 257310024292 G4 box; other site 257310024293 G5 box; other site 257310024294 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 257310024295 HMMPfam hit to PF00009, DE Elongation factor Tu GTP binding domain, score 1.8e-60 257310024296 PS00301 GTP-binding elongation factors signature. 257310024297 HMMPfam hit to PF03144, DE Elongation factor Tu domain 2, score 1.3e-12 257310024298 Signal peptide predicted for BB4917 by SignalP 2.0 HMM (Signal peptide probabilty 0.999) with cleavage site probability 0.746 between residues 24 and 25; signal peptide 257310024299 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 257310024300 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 257310024301 heme binding site [chemical binding]; other site 257310024302 ferroxidase pore; other site 257310024303 ferroxidase diiron center [ion binding]; other site 257310024304 HMMPfam hit to PF00210, DE Ferritin-like domain, score 7.1e-50 257310024305 PS00549 Bacterioferritin signature. 257310024306 Signal peptide predicted for BB4919 by SignalP 2.0 HMM (Signal peptide probabilty 0.983) with cleavage site probability 0.774 between residues 20 and 21; signal peptide 257310024307 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 257310024308 EamA-like transporter family; Region: EamA; pfam00892 257310024309 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 1.6e-14 257310024310 10 probable transmembrane helices predicted for BB4919 by TMHMM2.0 at aa 21-40, 50-72, 84-106, 111-133, 140-159, 169-186, 193-215, 230-252, 257-279 and 283-302 257310024311 HMMPfam hit to PF00892, DE Integral membrane protein DUF6, score 3.5e-22 257310024312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 257310024313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 257310024314 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 257310024315 dimerization interface [polypeptide binding]; other site 257310024316 HMMPfam hit to PF00126, DE Bacterial regulatory helix-turn-helix protein, lysR family, score 2.4e-26 257310024317 PS00044 Bacterial regulatory proteins, lysR family signature. 257310024318 HMMPfam hit to PF03466, DE LysR substrate binding domain, score 1.8e-23 257310024319 PS00216 Sugar transport proteins signature 1. 257310024320 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 257310024321 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 257310024322 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 257310024323 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 257310024324 HMMPfam hit to PF00309, DE Sigma-54 factors family, score 2.9e-178 257310024325 PS00718 Sigma-54 factors family signature 2. 257310024326 PS00717 Sigma-54 factors family signature 1. 257310024327 2 probable transmembrane helices predicted for BB4923 by TMHMM2.0 at aa 29-51 and 79-101 257310024328 2-isopropylmalate synthase; Validated; Region: PRK03739 257310024329 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 257310024330 active site 257310024331 catalytic residues [active] 257310024332 metal binding site [ion binding]; metal-binding site 257310024333 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 257310024334 HMMPfam hit to PF00682, DE HMGL-like, score 1.6e-95 257310024335 PS00815 Alpha-isopropylmalate and homocitrate synthases signature 1. 257310024336 PS00816 Alpha-isopropylmalate and homocitrate synthases signature 2. 257310024337 PS00283 Soybean trypsin inhibitor (Kunitz) protease inhibitors family signature. 257310024338 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 257310024339 Amidase; Region: Amidase; cl11426 257310024340 HMMPfam hit to PF01425, DE Amidase, score 3.2e-84 257310024341 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024342 Transcriptional regulators [Transcription]; Region: PurR; COG1609 257310024343 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 257310024344 DNA binding site [nucleotide binding] 257310024345 domain linker motif; other site 257310024346 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 257310024347 putative dimerization interface [polypeptide binding]; other site 257310024348 putative ligand binding site [chemical binding]; other site 257310024349 HMMPfam hit to PF00356, DE Bacterial regulatory proteins, lacI family, score 2.7e-05 257310024350 HMMPfam hit to PF00532, DE Periplasmic binding proteins and sugar binding domain of the LacI family, score 9.4e-18 257310024351 Signal peptide predicted for BB4927 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.996 between residues 25 and 26; signal peptide 257310024352 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 257310024353 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 257310024354 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 0.00091 257310024355 Signal peptide predicted for BB4928 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.653 between residues 29 and 30; signal peptide 257310024356 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310024357 dimer interface [polypeptide binding]; other site 257310024358 conserved gate region; other site 257310024359 putative PBP binding loops; other site 257310024360 ABC-ATPase subunit interface; other site 257310024361 6 probable transmembrane helices predicted for BB4928 by TMHMM2.0 at aa 7-29, 58-80, 92-114, 129-151, 196-218 and 238-260 257310024362 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.3e-08 257310024363 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 257310024364 Signal peptide predicted for BB4929 by SignalP 2.0 HMM (Signal peptide probabilty 0.922) with cleavage site probability 0.697 between residues 34 and 35; signal peptide 257310024365 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310024366 dimer interface [polypeptide binding]; other site 257310024367 conserved gate region; other site 257310024368 putative PBP binding loops; other site 257310024369 ABC-ATPase subunit interface; other site 257310024370 6 probable transmembrane helices predicted for BB4929 by TMHMM2.0 at aa 12-34, 69-91, 104-126, 131-149, 182-204 and 235-257 257310024371 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 6.3e-09 257310024372 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 257310024373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310024374 Walker A/P-loop; other site 257310024375 ATP binding site [chemical binding]; other site 257310024376 Q-loop/lid; other site 257310024377 ABC transporter signature motif; other site 257310024378 Walker B; other site 257310024379 D-loop; other site 257310024380 H-loop/switch region; other site 257310024381 TOBE domain; Region: TOBE_2; pfam08402 257310024382 HMMPfam hit to PF00005, DE ABC transporter score 4.1e-67 257310024383 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024384 PS00211 ABC transporters family signature. 257310024385 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 257310024386 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 257310024387 active site 257310024388 metal binding site [ion binding]; metal-binding site 257310024389 hexamer interface [polypeptide binding]; other site 257310024390 HMMPfam hit to PF00149, DE Calcineurin-like phosphoesterase, score 6.4e-17 257310024391 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 257310024392 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 257310024393 Walker A/P-loop; other site 257310024394 ATP binding site [chemical binding]; other site 257310024395 Q-loop/lid; other site 257310024396 ABC transporter signature motif; other site 257310024397 Walker B; other site 257310024398 D-loop; other site 257310024399 H-loop/switch region; other site 257310024400 TOBE domain; Region: TOBE_2; pfam08402 257310024401 HMMPfam hit to PF00005, DE ABC transporter score 1e-65 257310024402 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024403 PS00211 ABC transporters family signature. 257310024404 Signal peptide predicted for BB4933 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 1.000 between residues 24 and 25; signal peptide 257310024405 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 257310024406 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 257310024407 HMMPfam hit to PF01547, DE Bacterial extracellular substrate-binding protein, score 1.9e-62 257310024408 Signal peptide predicted for BB4934 by SignalP 2.0 HMM (Signal peptide probabilty 0.912) with cleavage site probability 0.365 between residues 22 and 23; signal peptide 257310024409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310024410 dimer interface [polypeptide binding]; other site 257310024411 conserved gate region; other site 257310024412 putative PBP binding loops; other site 257310024413 ABC-ATPase subunit interface; other site 257310024414 6 probable transmembrane helices predicted for BB4934 by TMHMM2.0 at aa 7-29, 72-94, 101-123, 156-178, 199-221 and 259-281 257310024415 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.1e-13 257310024416 Signal peptide predicted for BB4935 by SignalP 2.0 HMM (Signal peptide probabilty 0.983) with cleavage site probability 0.879 between residues 24 and 25; signal peptide 257310024417 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 257310024418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310024419 dimer interface [polypeptide binding]; other site 257310024420 conserved gate region; other site 257310024421 putative PBP binding loops; other site 257310024422 ABC-ATPase subunit interface; other site 257310024423 6 probable transmembrane helices predicted for BB4935 by TMHMM2.0 at aa 7-29, 66-88, 97-115, 130-147, 184-206 and 231-253 257310024424 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.2e-13 257310024425 PS00402 Binding-protein-dependent transport systems inner membrane comp. sign. 257310024426 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 257310024427 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 257310024428 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 257310024429 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 257310024430 active site 257310024431 HIGH motif; other site 257310024432 KMSK motif region; other site 257310024433 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 257310024434 tRNA binding surface [nucleotide binding]; other site 257310024435 anticodon binding site; other site 257310024436 HMMPfam hit to PF03485, DE Arginyl tRNA synthetase N terminal domain, score 8.4e-22 257310024437 HMMPfam hit to PF00750, DE tRNA synthetases class I (R), score 1.7e-65 257310024438 PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 257310024439 Signal peptide predicted for BB4939 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.460 between residues 41 and 42; signal peptide 257310024440 Sporulation related domain; Region: SPOR; pfam05036 257310024441 Signal peptide predicted for BB4940 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.862 between residues 27 and 28; signal peptide 257310024442 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 257310024443 catalytic residues [active] 257310024444 hinge region; other site 257310024445 alpha helical domain; other site 257310024446 HMMPfam hit to PF01323, DE DSBA oxidoreductase, score 2.4e-10 257310024447 PS00194 Thioredoxin family active site. 257310024448 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 257310024449 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 257310024450 homodimer interface [polypeptide binding]; other site 257310024451 substrate-cofactor binding pocket; other site 257310024452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310024453 catalytic residue [active] 257310024454 HMMPfam hit to PF01053, DE Cys/Met metabolism PLP-dependent enzyme, score 3.1e-106 257310024455 PS00868 Cys/Met metabolism enzymes pyridoxal-phosphate attachment site. 257310024456 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 257310024457 6 probable transmembrane helices predicted for BB4942 by TMHMM2.0 at aa 47-69, 81-103, 107-129, 156-178, 193-215 and 227-246 257310024458 HMMPfam hit to PF01810, DE LysE type translocator, score 2.8e-15 257310024459 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 257310024460 HMMPfam hit to PF00753, DE Metallo-beta-lactamase superfamily, score 2.2e-14 257310024461 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 257310024462 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 257310024463 DNA binding residues [nucleotide binding] 257310024464 putative dimer interface [polypeptide binding]; other site 257310024465 HMMPfam hit to PF00376, DE Bacterial regulatory proteins, merR family, score 0.00041 257310024466 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 257310024467 isovaleryl-CoA dehydrogenase; Region: PLN02519 257310024468 substrate binding site [chemical binding]; other site 257310024469 FAD binding site [chemical binding]; other site 257310024470 catalytic base [active] 257310024471 HMMPfam hit to PF02771, DE Acyl-CoA dehydrogenase, N-terminal domain, score 5.9e-48 257310024472 HMMPfam hit to PF02770, DE Acyl-CoA dehydrogenase, middle domain, score 8.2e-62 257310024473 PS00072 Acyl-CoA dehydrogenases signature 1. 257310024474 HMMPfam hit to PF00441, DE Acyl-CoA dehydrogenase, C-terminal domain, score 3.5e-51 257310024475 PS00073 Acyl-CoA dehydrogenases signature 2. 257310024476 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 257310024477 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 257310024478 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024479 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 257310024480 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 257310024481 dimer interface [polypeptide binding]; other site 257310024482 active site 257310024483 HMMPfam hit to PF00108, DE Thiolase, N-terminal domain, score 5e-121 257310024484 HMMPfam hit to PF02803, DE Thiolase, C-terminal domain, score 2.8e-54 257310024485 PS00099 Thiolases active site. 257310024486 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 257310024487 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 257310024488 HMMPfam hit to PF01039, DE Carboxyl transferase domain, score 2.6e-219 257310024489 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 257310024490 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 257310024491 ATP-grasp domain; Region: ATP-grasp_4; cl17255 257310024492 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 257310024493 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 257310024494 carboxyltransferase (CT) interaction site; other site 257310024495 biotinylation site [posttranslational modification]; other site 257310024496 HMMPfam hit to PF00289, DE Carbamoyl-phosphate synthase L chain, N-terminal domain, score 2e-40 257310024497 HMMPfam hit to PF02786, DE Carbamoyl-phosphate synthase L chain, ATP binding domain, score 4.3e-109 257310024498 PS00866 Carbamoyl-phosphate synthase subdomain signature 1. 257310024499 PS00867 Carbamoyl-phosphate synthase subdomain signature 2. 257310024500 HMMPfam hit to PF02785, DE Biotin carboxylase C-terminal domain, score 3.3e-45 257310024501 HMMPfam hit to PF00364, DE Biotin-requiring enzyme, score 1.5e-19 257310024502 PS00188 Biotin-requiring enzymes attachment site. 257310024503 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 257310024504 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 257310024505 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 257310024506 inhibitor-cofactor binding pocket; inhibition site 257310024507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310024508 catalytic residue [active] 257310024509 HMMPfam hit to PF00202, DE Aminotransferase class-III, score 1.3e-127 257310024510 PS00600 Aminotransferases class-III pyridoxal-phosphate attachment site. 257310024511 Signal peptide predicted for BB4952 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.990 between residues 23 and 24; signal peptide 257310024512 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310024513 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 9.2e-102 257310024514 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 257310024515 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 257310024516 active site 257310024517 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 257310024518 dimer interface [polypeptide binding]; other site 257310024519 substrate binding site [chemical binding]; other site 257310024520 catalytic residue [active] 257310024521 Signal peptide predicted for BB4954 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.989 between residues 25 and 26; signal peptide 257310024522 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 257310024523 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 257310024524 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 257310024525 DctM-like transporters; Region: DctM; pfam06808 257310024526 18 probable transmembrane helices predicted for BB4955 by TMHMM2.0 at aa 30-52, 62-80, 93-115, 119-141, 148-170, 195-217, 256-278, 293-315, 322-341, 381-403, 424-446, 451-473, 480-499, 503-522, 529-551, 566-588, 595-617 and 637-659 257310024527 Signal peptide predicted for BB4956 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.901 between residues 29 and 30; signal peptide 257310024528 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 257310024529 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 257310024530 N-terminal plug; other site 257310024531 ligand-binding site [chemical binding]; other site 257310024532 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310024533 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00593, DE TonB dependent receptor C-terminal region, score 3.4e-16 257310024534 PS00392 DDC / GAD / HDC / TyrDC pyridoxal-phosphate attachment site. 257310024535 This hit extended beyond the end of the feature by 1 aa and was clipped.; PS01156 TonB-dependent receptor proteins signature 2. 257310024536 Protein of unknown function (DUF494); Region: DUF494; pfam04361 257310024537 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 257310024538 active site 257310024539 HIGH motif; other site 257310024540 nucleotide binding site [chemical binding]; other site 257310024541 active site 257310024542 KMSKS motif; other site 257310024543 HMMPfam hit to PF00749, DE tRNA synthetases class I (E and Q), catalytic domain, score 1.9e-15 257310024544 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 257310024545 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 257310024546 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 257310024547 22 probable transmembrane helices predicted for BB4959 by TMHMM2.0 at aa 21-43, 53-72, 84-106, 116-131, 136-153, 166-188, 201-220, 224-243, 250-272, 277-299, 350-372, 382-399, 404-426, 430-449, 456-475, 495-517, 530-552, 562-584, 596-618, 633-652, 661-683 and 703-725 257310024548 DNA topoisomerase III; Validated; Region: PRK08173 257310024549 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 257310024550 active site 257310024551 putative interdomain interaction site [polypeptide binding]; other site 257310024552 putative metal-binding site [ion binding]; other site 257310024553 putative nucleotide binding site [chemical binding]; other site 257310024554 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 257310024555 domain I; other site 257310024556 DNA binding groove [nucleotide binding] 257310024557 phosphate binding site [ion binding]; other site 257310024558 domain II; other site 257310024559 domain III; other site 257310024560 nucleotide binding site [chemical binding]; other site 257310024561 catalytic site [active] 257310024562 domain IV; other site 257310024563 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 257310024564 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 257310024565 HMMPfam hit to PF01751, DE Toprim domain, score 4.5e-14 257310024566 HMMPfam hit to PF01131, DE DNA topoisomerase, score 1.1e-103 257310024567 PS00396 Prokaryotic DNA topoisomerase I active site. 257310024568 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024569 Signal peptide predicted for BB4961 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.974 between residues 35 and 36; signal peptide 257310024570 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 257310024571 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 257310024572 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 257310024573 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310024574 Walker A/P-loop; other site 257310024575 ATP binding site [chemical binding]; other site 257310024576 Q-loop/lid; other site 257310024577 ABC transporter signature motif; other site 257310024578 Walker B; other site 257310024579 D-loop; other site 257310024580 H-loop/switch region; other site 257310024581 HMMPfam hit to PF00005, DE ABC transporter score 6.7e-59 257310024582 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024583 PS00211 ABC transporters family signature. 257310024584 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310024585 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310024586 dimer interface [polypeptide binding]; other site 257310024587 conserved gate region; other site 257310024588 putative PBP binding loops; other site 257310024589 ABC-ATPase subunit interface; other site 257310024590 5 probable transmembrane helices predicted for BB4963 by TMHMM2.0 at aa 31-53, 90-112, 146-168, 216-238 and 251-273 257310024591 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.0068 257310024592 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 257310024593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 257310024594 NAD(P) binding site [chemical binding]; other site 257310024595 active site 257310024596 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 1.8e-80 257310024597 PS00061 Short-chain dehydrogenases/reductases family signature. 257310024598 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 257310024599 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 257310024600 NAD(P) binding site [chemical binding]; other site 257310024601 catalytic residues [active] 257310024602 catalytic residues [active] 257310024603 HMMPfam hit to PF00171, DE Aldehyde dehydrogenase family, score 4e-174 257310024604 PS00687 Aldehyde dehydrogenases glutamic acid active site. 257310024605 PS00070 Aldehyde dehydrogenases cysteine active site. 257310024606 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 257310024607 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 257310024608 Signal peptide predicted for BB4966 by SignalP 2.0 HMM (Signal peptide probabilty 0.716) with cleavage site probability 0.441 between residues 22 and 23; signal peptide 257310024609 putative NAD(P) binding site [chemical binding]; other site 257310024610 active site 257310024611 HMMPfam hit to PF00106, DE short chain dehydrogenase, score 7.8e-75 257310024612 PS00038 Myc-type, 'helix-loop-helix' dimerization domain signature. 257310024613 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 257310024614 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 257310024615 PYR/PP interface [polypeptide binding]; other site 257310024616 dimer interface [polypeptide binding]; other site 257310024617 TPP binding site [chemical binding]; other site 257310024618 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 257310024619 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 257310024620 TPP-binding site [chemical binding]; other site 257310024621 dimer interface [polypeptide binding]; other site 257310024622 HMMPfam hit to PF02775, DE Thiamine pyrophosphate enzyme, C-terminal TPP binding domain, score 1.7e-77 257310024623 PS00187 Thiamine pyrophosphate enzymes signature. 257310024624 HMMPfam hit to PF00205, DE Thiamine pyrophosphate enzyme, central domain, score 6.8e-54 257310024625 HMMPfam hit to PF02776, DE Thiamine pyrophosphate enzyme, N-terminal TPP binding domain, score 2.4e-82 257310024626 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 257310024627 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 257310024628 putative DNA binding site [nucleotide binding]; other site 257310024629 putative Zn2+ binding site [ion binding]; other site 257310024630 AsnC family; Region: AsnC_trans_reg; pfam01037 257310024631 PS00519 Bacterial regulatory proteins, asnC family signature. 257310024632 HMMPfam hit to PF01037, DE AsnC family, score 1.5e-39 257310024633 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 257310024634 3 probable transmembrane helices predicted for BB4969 by TMHMM2.0 at aa 20-42, 52-74 and 222-244 257310024635 Proteins containing SET domain [General function prediction only]; Region: COG2940 257310024636 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 257310024637 HMMPfam hit to PF00856, DE SET domain, score 9.9e-31 257310024638 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK00014 257310024639 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 257310024640 HMMPfam hit to PF00926, DE 3,4-dihydroxy-2-butanone 4-phosphate synthase, score 4.9e-97 257310024641 PS00339 Aminoacyl-transfer RNA synthetases class-II signature 2. 257310024642 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 257310024643 Signal peptide predicted for BB4973 by SignalP 2.0 HMM (Signal peptide probabilty 0.994) with cleavage site probability 0.948 between residues 48 and 49; signal peptide 257310024644 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 257310024645 PS00013 Prokaryotic membrane lipoprotein lipid attachment site. 257310024646 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 257310024647 NADH(P)-binding; Region: NAD_binding_10; pfam13460 257310024648 NAD binding site [chemical binding]; other site 257310024649 putative active site [active] 257310024650 substrate binding site [chemical binding]; other site 257310024651 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 257310024652 Signal peptide predicted for BB4975 by SignalP 2.0 HMM (Signal peptide probabilty 0.905) with cleavage site probability 0.677 between residues 22 and 23; signal peptide 257310024653 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 257310024654 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 257310024655 HMMPfam hit to PF02558, DE Ketopantoate reductase PanE/ApbA, score 1.1e-32 257310024656 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 257310024657 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 257310024658 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 257310024659 active site residue [active] 257310024660 5 probable transmembrane helices predicted for BB4976 by TMHMM2.0 at aa 21-43, 58-80, 116-138, 153-175 and 188-210 257310024661 HMMPfam hit to PF00597, DE DedA family, score 9.3e-10 257310024662 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 257310024663 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 257310024664 HMMPfam hit to PF00583, DE Acetyltransferase (GNAT) family, score 1.6e-07 257310024665 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 257310024666 putative active site [active] 257310024667 Zn binding site [ion binding]; other site 257310024668 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 257310024669 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 257310024670 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 9.5e-06 257310024671 PS00041 Bacterial regulatory proteins, araC family signature. 257310024672 HMMPfam hit to PF00165, DE Bacterial regulatory helix-turn-helix proteins, araC family, score 0.033 257310024673 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 257310024674 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 257310024675 active site 257310024676 substrate binding site [chemical binding]; other site 257310024677 FMN binding site [chemical binding]; other site 257310024678 putative catalytic residues [active] 257310024679 HMMPfam hit to PF01070, DE FMN-dependent dehydrogenase, score 6.9e-208 257310024680 PS00557 FMN-dependent alpha-hydroxy acid dehydrogenases active site. 257310024681 acylphosphatase; Provisional; Region: PRK14424 257310024682 HMMPfam hit to PF00708, DE Acylphosphatase, score 3e-16 257310024683 PS00151 Acylphosphatase signature 2. 257310024684 Signal peptide predicted for BB4982 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.794 between residues 26 and 27; signal peptide 257310024685 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 257310024686 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.7e-84 257310024687 PS00133 Zinc carboxypeptidases, zinc-binding region 2 signature. 257310024688 amidase; Provisional; Region: PRK07486 257310024689 Amidase; Region: Amidase; pfam01425 257310024690 HMMPfam hit to PF01425, DE Amidase, score 2.6e-114 257310024691 PS00571 Amidases signature. 257310024692 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024693 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 257310024694 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 257310024695 Bacterial transcriptional regulator; Region: IclR; pfam01614 257310024696 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF01614, DE Bacterial transcriptional regulator, score 4.3e-33 257310024697 Signal peptide predicted for BB4985 by SignalP 2.0 HMM (Signal peptide probabilty 0.923) with cleavage site probability 0.793 between residues 23 and 24; signal peptide 257310024698 FOG: WD40 repeat [General function prediction only]; Region: COG2319 257310024699 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 257310024700 structural tetrad; other site 257310024701 Caspase domain; Region: Peptidase_C14; pfam00656 257310024702 HMMPfam hit to PF00400, DE WD domain, G-beta repeat, score 0.13 257310024703 HMMPfam hit to PF00400, DE WD domain, G-beta repeat, score 19 257310024704 HMMPfam hit to PF00400, DE WD domain, G-beta repeat, score 39 257310024705 HMMPfam hit to PF00400, DE WD domain, G-beta repeat, score 68 257310024706 Signal peptide predicted for BB4986 by SignalP 2.0 HMM (Signal peptide probabilty 0.898) with cleavage site probability 0.434 between residues 34 and 35; signal peptide 257310024707 PS00196 Type-1 copper (blue) proteins signature. 257310024708 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 257310024709 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310024710 ATP binding site [chemical binding]; other site 257310024711 Mg2+ binding site [ion binding]; other site 257310024712 G-X-G motif; other site 257310024713 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 257310024714 anchoring element; other site 257310024715 dimer interface [polypeptide binding]; other site 257310024716 ATP binding site [chemical binding]; other site 257310024717 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 257310024718 active site 257310024719 putative metal-binding site [ion binding]; other site 257310024720 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 257310024721 HMMPfam hit to PF00986, DE DNA gyrase B subunit, carboxyl terminus, score 4.7e-44 257310024722 HMMPfam hit to PF01751, DE Toprim domain, score 0.00022 257310024723 PS00177 DNA topoisomerase II signature. 257310024724 HMMPfam hit to PF00204, DE DNA gyrase B, score 1.1e-82 257310024725 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 1.2e-30 257310024726 DNA polymerase III subunit beta; Validated; Region: PRK05643 257310024727 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 257310024728 putative DNA binding surface [nucleotide binding]; other site 257310024729 dimer interface [polypeptide binding]; other site 257310024730 beta-clamp/clamp loader binding surface; other site 257310024731 beta-clamp/translesion DNA polymerase binding surface; other site 257310024732 HMMPfam hit to PF02768, DE DNA polymerase III beta subunit, C-terminal domain, score 6.8e-36 257310024733 HMMPfam hit to PF02767, DE DNA polymerase III beta subunit, central domain, score 2.1e-41 257310024734 HMMPfam hit to PF00712, DE DNA polymerase III beta subunit, N-terminal domain, score 1.2e-24 257310024735 PS00343 Gram-positive cocci surface proteins 'anchoring' hexapeptide. 257310024736 DnaA N-terminal domain; Region: DnaA_N; pfam11638 257310024737 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 257310024738 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 257310024739 Walker A motif; other site 257310024740 ATP binding site [chemical binding]; other site 257310024741 Walker B motif; other site 257310024742 arginine finger; other site 257310024743 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 257310024744 DnaA box-binding interface [nucleotide binding]; other site 257310024745 HMMPfam hit to PF00308, DE Bacterial dnaA protein, score 1e-172 257310024746 PS01008 DnaA protein signature. 257310024747 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024748 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 257310024749 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00468, DE Ribosomal protein L34, score 1.7e-18 257310024750 PS00784 Ribosomal protein L34 signature. 257310024751 ribonuclease P; Reviewed; Region: rnpA; PRK00038 257310024752 HMMPfam hit to PF00825, DE Ribonuclease P, score 5.9e-07 257310024753 Haemolytic domain; Region: Haemolytic; pfam01809 257310024754 HMMPfam hit to PF01809, DE Domain of unknown function DUF37, score 5.2e-41 257310024755 membrane protein insertase; Provisional; Region: PRK01318 257310024756 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 257310024757 HMMPfam hit to PF02096, DE 60Kd inner membrane protein, score 8.4e-98 257310024758 3 probable transmembrane helices predicted for BB4993 by TMHMM2.0 at aa 364-386, 429-451 and 504-526 257310024759 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 257310024760 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 257310024761 tetramer interface [polypeptide binding]; other site 257310024762 heme binding pocket [chemical binding]; other site 257310024763 NADPH binding site [chemical binding]; other site 257310024764 HMMPfam hit to PF00199, DE Catalase, score 5.3e-288 257310024765 PS00438 Catalase proximal active site signature. 257310024766 PS00437 Catalase proximal heme-ligand signature. 257310024767 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 257310024768 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310024769 putative PBP binding loops; other site 257310024770 ABC-ATPase subunit interface; other site 257310024771 6 probable transmembrane helices predicted for BB4995 by TMHMM2.0 at aa 99-121, 131-153, 158-180, 200-222, 227-249 and 259-278 257310024772 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.001 257310024773 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 257310024774 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 257310024775 Walker A/P-loop; other site 257310024776 ATP binding site [chemical binding]; other site 257310024777 Q-loop/lid; other site 257310024778 ABC transporter signature motif; other site 257310024779 Walker B; other site 257310024780 D-loop; other site 257310024781 H-loop/switch region; other site 257310024782 HMMPfam hit to PF00005, DE ABC transporter score 1.8e-52 257310024783 PS00211 ABC transporters family signature. 257310024784 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024785 Signal peptide predicted for BB4997 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.886 between residues 37 and 38; signal peptide 257310024786 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 257310024787 NMT1-like family; Region: NMT1_2; pfam13379 257310024788 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 257310024789 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 257310024790 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF02668, DE Taurine catabolism dioxygenase TauD, TfdA family, score 4.8e-53 257310024791 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 257310024792 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 257310024793 metal binding site [ion binding]; metal-binding site 257310024794 putative dimer interface [polypeptide binding]; other site 257310024795 HMMPfam hit to PF01546, DE Peptidase family M20/M25/M40, score 3.1e-86 257310024796 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 257310024797 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310024798 Walker A/P-loop; other site 257310024799 ATP binding site [chemical binding]; other site 257310024800 Q-loop/lid; other site 257310024801 ABC transporter signature motif; other site 257310024802 Walker B; other site 257310024803 D-loop; other site 257310024804 H-loop/switch region; other site 257310024805 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 257310024806 HMMPfam hit to PF00005, DE ABC transporter score 7.1e-57 257310024807 PS00211 ABC transporters family signature. 257310024808 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024809 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 257310024810 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 257310024811 Walker A/P-loop; other site 257310024812 ATP binding site [chemical binding]; other site 257310024813 Q-loop/lid; other site 257310024814 ABC transporter signature motif; other site 257310024815 Walker B; other site 257310024816 D-loop; other site 257310024817 H-loop/switch region; other site 257310024818 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 257310024819 HMMPfam hit to PF00005, DE ABC transporter score 4.6e-54 257310024820 PS00211 ABC transporters family signature. 257310024821 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024822 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 257310024823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310024824 dimer interface [polypeptide binding]; other site 257310024825 conserved gate region; other site 257310024826 putative PBP binding loops; other site 257310024827 ABC-ATPase subunit interface; other site 257310024828 5 probable transmembrane helices predicted for BB5002 by TMHMM2.0 at aa 32-54, 108-130, 145-162, 216-238 and 271-293 257310024829 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 1.4e-09 257310024830 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 257310024831 Signal peptide predicted for BB5003 by SignalP 2.0 HMM (Signal peptide probabilty 0.980) with cleavage site probability 0.622 between residues 25 and 26; signal peptide 257310024832 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 257310024833 dimer interface [polypeptide binding]; other site 257310024834 conserved gate region; other site 257310024835 putative PBP binding loops; other site 257310024836 ABC-ATPase subunit interface; other site 257310024837 6 probable transmembrane helices predicted for BB5003 by TMHMM2.0 at aa 9-31, 96-118, 139-161, 176-198, 241-263 and 292-314 257310024838 HMMPfam hit to PF00528, DE Binding-protein-dependent transport systems inner membrane component, score 0.0018 257310024839 Signal peptide predicted for BB5004 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.924 between residues 28 and 29; signal peptide 257310024840 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 257310024841 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 257310024842 HMMPfam hit to PF00496, DE Bacterial extracellular substrate-binding proteins, family 5, score 2.2e-89 257310024843 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024844 1 probable transmembrane helix predicted for BB5004 by TMHMM2.0 at aa 5-27 257310024845 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 257310024846 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 257310024847 trmE is a tRNA modification GTPase; Region: trmE; cd04164 257310024848 G1 box; other site 257310024849 GTP/Mg2+ binding site [chemical binding]; other site 257310024850 Switch I region; other site 257310024851 G2 box; other site 257310024852 Switch II region; other site 257310024853 G3 box; other site 257310024854 G4 box; other site 257310024855 G5 box; other site 257310024856 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 257310024857 HMMPfam hit to PF01926, DE GTPase of unknown function, score 1.1e-06 257310024858 PS00017 ATP/GTP-binding site motif A (P-loop). 257310024859 12 probable transmembrane helices predicted for BB5006 by TMHMM2.0 at aa 13-35, 45-67, 74-95, 105-127, 139-161, 166-188, 228-250, 260-282, 294-313, 318-340, 353-375 and 385-407 257310024860 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 257310024861 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 257310024862 active site 257310024863 phosphorylation site [posttranslational modification] 257310024864 intermolecular recognition site; other site 257310024865 dimerization interface [polypeptide binding]; other site 257310024866 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 257310024867 DNA binding site [nucleotide binding] 257310024868 HMMPfam hit to PF00072, DE Response regulator receiver domain, score 7.1e-32 257310024869 HMMPfam hit to PF00486, DE Transcriptional regulatory protein, C terminal, score 7.1e-15 257310024870 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 257310024871 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 257310024872 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 257310024873 dimer interface [polypeptide binding]; other site 257310024874 phosphorylation site [posttranslational modification] 257310024875 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 257310024876 ATP binding site [chemical binding]; other site 257310024877 Mg2+ binding site [ion binding]; other site 257310024878 G-X-G motif; other site 257310024879 2 probable transmembrane helices predicted for BB5008 by TMHMM2.0 at aa 4-21 and 165-183 257310024880 HMMPfam hit to PF00512, DE His Kinase A (phosphoacceptor) domain, score 3.5e-11 257310024881 HMMPfam hit to PF02518, DE Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase, score 1.7e-30 257310024882 Signal peptide predicted for BB5009 by SignalP 2.0 HMM (Signal peptide probabilty 1.000) with cleavage site probability 0.994 between residues 28 and 29; signal peptide 257310024883 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 257310024884 HMMPfam hit to PF03401, DE Uncharacterized protein family, UPF0065, score 1.5e-07 257310024885 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 257310024886 Signal peptide predicted for BB5010 by SignalP 2.0 HMM (Signal peptide probabilty 0.996) with cleavage site probability 0.990 between residues 20 and 21; signal peptide 257310024887 4 probable transmembrane helices predicted for BB5010 by TMHMM2.0 at aa 5-22, 37-54, 74-96 and 106-128 257310024888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 257310024889 11 probable transmembrane helices predicted for BB5011 by TMHMM2.0 at aa 12-34, 49-71, 111-133, 143-165, 172-194, 262-284, 319-341, 361-383, 390-412, 427-449 and 469-491 257310024890 HMMPfam hit to PF01970, DE Integral membrane protein DUF112, score 2.2e-29 257310024891 methionine aminotransferase; Validated; Region: PRK09082 257310024892 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 257310024893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 257310024894 homodimer interface [polypeptide binding]; other site 257310024895 catalytic residue [active] 257310024896 HMMPfam hit to PF00155, DE Aminotransferase class I and II, score 2.3e-18 257310024897 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 257310024898 DNA-binding site [nucleotide binding]; DNA binding site 257310024899 RNA-binding motif; other site 257310024900 This hit extended beyond the end of the feature by 1 aa and was clipped.; HMMPfam hit to PF00313, DE 'Cold-shock' DNA-binding domain, score 1.9e-39 257310024901 PS00352 'Cold-shock' DNA-binding domain signature.