-- dump date 20140619_053748 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1138308000001 FMN-binding protein MioC; Provisional; Region: PRK09004 1138308000002 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1138308000003 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 1138308000004 putative DNA binding site [nucleotide binding]; other site 1138308000005 putative Zn2+ binding site [ion binding]; other site 1138308000006 AsnC family; Region: AsnC_trans_reg; pfam01037 1138308000007 Asparagine synthetase A [Amino acid transport and metabolism]; Region: AsnA; COG2502 1138308000008 motif 1; other site 1138308000009 dimer interface [polypeptide binding]; other site 1138308000010 active site 1138308000011 motif 2; other site 1138308000012 motif 3; other site 1138308000013 hypothetical protein; Provisional; Region: yieM; PRK10997 1138308000014 VWA YIEM type: 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_YIEM_type; cd01462 1138308000015 metal ion-dependent adhesion site (MIDAS); other site 1138308000016 regulatory ATPase RavA; Provisional; Region: PRK13531 1138308000017 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 1138308000018 Walker A motif; other site 1138308000019 ATP binding site [chemical binding]; other site 1138308000020 Walker B motif; other site 1138308000021 arginine finger; other site 1138308000022 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 1138308000023 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 1138308000024 potassium uptake protein; Region: kup; TIGR00794 1138308000025 D-ribose pyranase; Provisional; Region: PRK11797 1138308000026 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1138308000027 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1138308000028 Walker A/P-loop; other site 1138308000029 ATP binding site [chemical binding]; other site 1138308000030 Q-loop/lid; other site 1138308000031 ABC transporter signature motif; other site 1138308000032 Walker B; other site 1138308000033 D-loop; other site 1138308000034 H-loop/switch region; other site 1138308000035 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1138308000036 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1138308000037 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 1138308000038 TM-ABC transporter signature motif; other site 1138308000039 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1138308000040 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1138308000041 ligand binding site [chemical binding]; other site 1138308000042 dimerization interface [polypeptide binding]; other site 1138308000043 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1138308000044 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1138308000045 substrate binding site [chemical binding]; other site 1138308000046 dimer interface [polypeptide binding]; other site 1138308000047 ATP binding site [chemical binding]; other site 1138308000048 transcriptional repressor RbsR; Provisional; Region: PRK10423 1138308000049 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308000050 DNA binding site [nucleotide binding] 1138308000051 domain linker motif; other site 1138308000052 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1138308000053 dimerization interface [polypeptide binding]; other site 1138308000054 ligand binding site [chemical binding]; other site 1138308000055 putative transporter; Provisional; Region: PRK10504 1138308000056 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 1138308000057 putative substrate translocation pore; other site 1138308000058 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 1138308000059 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1138308000060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308000061 DNA-binding site [nucleotide binding]; DNA binding site 1138308000062 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1138308000063 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 1138308000064 Walker A motif; other site 1138308000065 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1138308000066 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1138308000067 GTP binding site; other site 1138308000068 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 1138308000069 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1138308000070 serine/threonine protein kinase; Provisional; Region: PRK11768 1138308000071 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 1138308000072 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1138308000073 catalytic residues [active] 1138308000074 hinge region; other site 1138308000075 alpha helical domain; other site 1138308000076 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1138308000077 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1138308000078 putative acyl-acceptor binding pocket; other site 1138308000079 DNA polymerase I; Provisional; Region: PRK05755 1138308000080 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1138308000081 active site 1138308000082 metal binding site 1 [ion binding]; metal-binding site 1138308000083 putative 5' ssDNA interaction site; other site 1138308000084 metal binding site 3; metal-binding site 1138308000085 metal binding site 2 [ion binding]; metal-binding site 1138308000086 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1138308000087 putative DNA binding site [nucleotide binding]; other site 1138308000088 putative metal binding site [ion binding]; other site 1138308000089 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 1138308000090 active site 1138308000091 catalytic site [active] 1138308000092 substrate binding site [chemical binding]; other site 1138308000093 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1138308000094 active site 1138308000095 DNA binding site [nucleotide binding] 1138308000096 catalytic site [active] 1138308000097 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1138308000098 G1 box; other site 1138308000099 GTP/Mg2+ binding site [chemical binding]; other site 1138308000100 Switch I region; other site 1138308000101 G2 box; other site 1138308000102 G3 box; other site 1138308000103 Switch II region; other site 1138308000104 G4 box; other site 1138308000105 G5 box; other site 1138308000106 Der GTPase activator; Provisional; Region: PRK05244 1138308000107 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1138308000108 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 1138308000109 FeS/SAM binding site; other site 1138308000110 HemN C-terminal domain; Region: HemN_C; pfam06969 1138308000111 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 1138308000112 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 1138308000113 active site 1138308000114 phosphorylation site [posttranslational modification] 1138308000115 intermolecular recognition site; other site 1138308000116 dimerization interface [polypeptide binding]; other site 1138308000117 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 1138308000118 Walker A motif; other site 1138308000119 ATP binding site [chemical binding]; other site 1138308000120 Walker B motif; other site 1138308000121 arginine finger; other site 1138308000122 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1138308000123 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1138308000124 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 1138308000125 putative active site [active] 1138308000126 heme pocket [chemical binding]; other site 1138308000127 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 1138308000128 dimer interface [polypeptide binding]; other site 1138308000129 phosphorylation site [posttranslational modification] 1138308000130 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 1138308000131 ATP binding site [chemical binding]; other site 1138308000132 Mg2+ binding site [ion binding]; other site 1138308000133 G-X-G motif; other site 1138308000134 glutamine synthetase; Provisional; Region: glnA; PRK09469 1138308000135 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1138308000136 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1138308000137 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1138308000138 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1138308000139 G1 box; other site 1138308000140 putative GEF interaction site [polypeptide binding]; other site 1138308000141 GTP/Mg2+ binding site [chemical binding]; other site 1138308000142 Switch I region; other site 1138308000143 G2 box; other site 1138308000144 G3 box; other site 1138308000145 Switch II region; other site 1138308000146 G4 box; other site 1138308000147 G5 box; other site 1138308000148 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 1138308000149 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 1138308000150 outer membrane porin L; Provisional; Region: ompL; PRK09980 1138308000151 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1138308000152 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1138308000153 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1138308000154 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 1138308000155 putative substrate translocation pore; other site 1138308000156 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1138308000157 alpha-glucosidase; Provisional; Region: PRK10426 1138308000158 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1138308000159 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 1138308000160 putative active site [active] 1138308000161 putative catalytic site [active] 1138308000162 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 1138308000163 active site 1138308000164 catalytic residues [active] 1138308000165 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; cd00249 1138308000166 dimerization interface [polypeptide binding]; other site 1138308000167 putative active cleft [active] 1138308000168 Class I aldolases; Region: Aldolase_Class_I; cl17187 1138308000169 catalytic residue [active] 1138308000170 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 1138308000171 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1138308000172 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1138308000173 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 1138308000174 substrate binding site [chemical binding]; other site 1138308000175 ATP binding site [chemical binding]; other site 1138308000176 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1138308000177 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1138308000178 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1138308000179 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1138308000180 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 1138308000181 motif II; other site 1138308000182 hypothetical protein; Reviewed; Region: PRK01637 1138308000183 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1138308000184 putative active site [active] 1138308000185 dimerization interface [polypeptide binding]; other site 1138308000186 putative tRNAtyr binding site [nucleotide binding]; other site 1138308000187 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308000188 Coenzyme A binding pocket [chemical binding]; other site 1138308000189 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1138308000190 AsmA family; Region: AsmA; pfam05170 1138308000191 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1138308000192 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1138308000193 Fimbrial protein; Region: Fimbrial; pfam00419 1138308000194 Fimbrial protein; Region: Fimbrial; cl01416 1138308000195 Fimbrial protein; Region: Fimbrial; pfam00419 1138308000196 Fimbrial protein; Region: Fimbrial; pfam00419 1138308000197 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1138308000198 PapC N-terminal domain; Region: PapC_N; pfam13954 1138308000199 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1138308000200 PapC C-terminal domain; Region: PapC_C; pfam13953 1138308000201 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1138308000202 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1138308000203 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1138308000204 Fimbrial protein; Region: Fimbrial; pfam00419 1138308000205 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1138308000206 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 1138308000207 generic binding surface II; other site 1138308000208 ssDNA binding site; other site 1138308000209 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 1138308000210 ATP binding site [chemical binding]; other site 1138308000211 putative Mg++ binding site [ion binding]; other site 1138308000212 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 1138308000213 nucleotide binding region [chemical binding]; other site 1138308000214 ATP-binding site [chemical binding]; other site 1138308000215 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1138308000216 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1138308000217 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1138308000218 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1138308000219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1138308000220 Zn2+ binding site [ion binding]; other site 1138308000221 Mg2+ binding site [ion binding]; other site 1138308000222 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1138308000223 synthetase active site [active] 1138308000224 NTP binding site [chemical binding]; other site 1138308000225 metal binding site [ion binding]; metal-binding site 1138308000226 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 1138308000227 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1138308000228 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1138308000229 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1138308000230 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 1138308000231 catalytic site [active] 1138308000232 G-X2-G-X-G-K; other site 1138308000233 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 1138308000234 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; cl03295 1138308000235 nucleotide binding pocket [chemical binding]; other site 1138308000236 K-X-D-G motif; other site 1138308000237 catalytic site [active] 1138308000238 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1138308000239 Predicted membrane protein [Function unknown]; Region: COG2860 1138308000240 UPF0126 domain; Region: UPF0126; pfam03458 1138308000241 UPF0126 domain; Region: UPF0126; pfam03458 1138308000242 hypothetical protein; Provisional; Region: PRK11820 1138308000243 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1138308000244 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1138308000245 ribonuclease PH; Reviewed; Region: rph; PRK00173 1138308000246 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1138308000247 hexamer interface [polypeptide binding]; other site 1138308000248 active site 1138308000249 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1138308000250 active site 1138308000251 division inhibitor protein; Provisional; Region: slmA; PRK09480 1138308000252 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308000253 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1138308000254 trimer interface [polypeptide binding]; other site 1138308000255 active site 1138308000256 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1138308000257 Flavoprotein; Region: Flavoprotein; pfam02441 1138308000258 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1138308000259 hypothetical protein; Reviewed; Region: PRK00024 1138308000260 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1138308000261 MPN+ (JAMM) motif; other site 1138308000262 Zinc-binding site [ion binding]; other site 1138308000263 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1138308000264 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1138308000265 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1138308000266 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1138308000267 DNA binding site [nucleotide binding] 1138308000268 catalytic residue [active] 1138308000269 H2TH interface [polypeptide binding]; other site 1138308000270 putative catalytic residues [active] 1138308000271 turnover-facilitating residue; other site 1138308000272 intercalation triad [nucleotide binding]; other site 1138308000273 8OG recognition residue [nucleotide binding]; other site 1138308000274 putative reading head residues; other site 1138308000275 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1138308000276 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1138308000277 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1138308000278 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1138308000279 active site 1138308000280 (T/H)XGH motif; other site 1138308000281 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1138308000282 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1138308000283 putative metal binding site; other site 1138308000284 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1138308000285 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1138308000286 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 1138308000287 Sulfatase; Region: Sulfatase; cl17466 1138308000288 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 1138308000289 putative glycosyl transferase; Provisional; Region: PRK10073 1138308000290 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 1138308000291 active site 1138308000292 O-Antigen ligase; Region: Wzy_C; cl04850 1138308000293 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1138308000294 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 1138308000295 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1138308000296 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 1138308000297 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 1138308000298 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 1138308000299 putative active site [active] 1138308000300 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1138308000301 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 1138308000302 putative active site [active] 1138308000303 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1138308000304 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 1138308000305 putative active site [active] 1138308000306 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1138308000307 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1138308000308 NADP binding site [chemical binding]; other site 1138308000309 homopentamer interface [polypeptide binding]; other site 1138308000310 substrate binding site [chemical binding]; other site 1138308000311 active site 1138308000312 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1138308000313 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 1138308000314 substrate-cofactor binding pocket; other site 1138308000315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308000316 catalytic residue [active] 1138308000317 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1138308000318 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1138308000319 NAD(P) binding site [chemical binding]; other site 1138308000320 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1138308000321 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1138308000322 putative metal binding site; other site 1138308000323 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1138308000324 NodB motif; other site 1138308000325 putative active site [active] 1138308000326 putative catalytic site [active] 1138308000327 Zn binding site [ion binding]; other site 1138308000328 AmiB activator; Provisional; Region: PRK11637 1138308000329 Peptidase family M23; Region: Peptidase_M23; pfam01551 1138308000330 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1138308000331 phosphoglyceromutase; Provisional; Region: PRK05434 1138308000332 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 1138308000333 active site residue [active] 1138308000334 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 1138308000335 GSH binding site [chemical binding]; other site 1138308000336 catalytic residues [active] 1138308000337 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1138308000338 SecA binding site; other site 1138308000339 Preprotein binding site; other site 1138308000340 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1138308000341 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1138308000342 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1138308000343 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1138308000344 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1138308000345 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 1138308000346 trimer interface [polypeptide binding]; other site 1138308000347 active site 1138308000348 substrate binding site [chemical binding]; other site 1138308000349 CoA binding site [chemical binding]; other site 1138308000350 putative rRNA methylase; Provisional; Region: PRK10358 1138308000351 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1138308000352 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; cl01054 1138308000353 dimerization interface [polypeptide binding]; other site 1138308000354 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 1138308000355 dimer interface [polypeptide binding]; other site 1138308000356 phosphorylation site [posttranslational modification] 1138308000357 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 1138308000358 ATP binding site [chemical binding]; other site 1138308000359 Mg2+ binding site [ion binding]; other site 1138308000360 G-X-G motif; other site 1138308000361 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1138308000362 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 1138308000363 active site 1138308000364 intermolecular recognition site; other site 1138308000365 dimerization interface [polypeptide binding]; other site 1138308000366 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 1138308000367 DNA binding site [nucleotide binding] 1138308000368 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1138308000369 dimer interface [polypeptide binding]; other site 1138308000370 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 1138308000371 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1138308000372 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1138308000373 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1138308000374 active site 1138308000375 ADP/pyrophosphate binding site [chemical binding]; other site 1138308000376 dimerization interface [polypeptide binding]; other site 1138308000377 allosteric effector site; other site 1138308000378 fructose-1,6-bisphosphate binding site; other site 1138308000379 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 1138308000380 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1138308000381 substrate binding pocket [chemical binding]; other site 1138308000382 membrane-bound complex binding site; other site 1138308000383 hinge residues; other site 1138308000384 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 1138308000385 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1138308000386 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 1138308000387 transmembrane helices; other site 1138308000388 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1138308000389 active site 1138308000390 homotetramer interface [polypeptide binding]; other site 1138308000391 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 1138308000392 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 1138308000393 active site 1138308000394 phosphorylation site [posttranslational modification] 1138308000395 intermolecular recognition site; other site 1138308000396 dimerization interface [polypeptide binding]; other site 1138308000397 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 1138308000398 DNA binding site [nucleotide binding] 1138308000399 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1138308000400 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 1138308000401 dimer interface [polypeptide binding]; other site 1138308000402 phosphorylation site [posttranslational modification] 1138308000403 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 1138308000404 ATP binding site [chemical binding]; other site 1138308000405 G-X-G motif; other site 1138308000406 CAAX protease self-immunity; Region: Abi; pfam02517 1138308000407 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1138308000408 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1138308000409 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1138308000410 putative NAD(P) binding site [chemical binding]; other site 1138308000411 putative substrate binding site [chemical binding]; other site 1138308000412 catalytic Zn binding site [ion binding]; other site 1138308000413 structural Zn binding site [ion binding]; other site 1138308000414 dimer interface [polypeptide binding]; other site 1138308000415 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1138308000416 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 1138308000417 putative substrate translocation pore; other site 1138308000418 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308000419 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308000420 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 1138308000421 putative effector binding pocket; other site 1138308000422 putative dimerization interface [polypeptide binding]; other site 1138308000423 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1138308000424 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1138308000425 putative metal binding site; other site 1138308000426 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 1138308000427 binding surface 1138308000428 TPR motif; other site 1138308000429 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1138308000430 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 1138308000431 catalytic loop [active] 1138308000432 iron binding site [ion binding]; other site 1138308000433 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1138308000434 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1138308000435 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1138308000436 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1138308000437 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1138308000438 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1138308000439 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1138308000440 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1138308000441 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1138308000442 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1138308000443 Ligand binding site; other site 1138308000444 metal-binding site 1138308000445 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 1138308000446 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1138308000447 active site 1138308000448 catalytic tetrad [active] 1138308000449 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1138308000450 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308000451 Protein of unknown function (DUF796); Region: DUF796; cl01226 1138308000452 putative transporter; Provisional; Region: PRK11462 1138308000453 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1138308000454 putative alpha-glucosidase; Provisional; Region: PRK10658 1138308000455 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1138308000456 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 1138308000457 active site 1138308000458 homotrimer interface [polypeptide binding]; other site 1138308000459 catalytic site [active] 1138308000460 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 1138308000461 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 1138308000462 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 1138308000463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308000464 homodimer interface [polypeptide binding]; other site 1138308000465 catalytic residue [active] 1138308000466 alpha-amylase; Reviewed; Region: malS; PRK09505 1138308000467 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1138308000468 active site 1138308000469 catalytic site [active] 1138308000470 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 1138308000471 hypothetical protein; Provisional; Region: PRK10356 1138308000472 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1138308000473 putative dimerization interface [polypeptide binding]; other site 1138308000474 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308000475 putative ligand binding site [chemical binding]; other site 1138308000476 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308000477 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1138308000478 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308000479 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1138308000480 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 1138308000481 TM-ABC transporter signature motif; other site 1138308000482 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1138308000483 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308000484 Walker A/P-loop; other site 1138308000485 ATP binding site [chemical binding]; other site 1138308000486 Q-loop/lid; other site 1138308000487 ABC transporter signature motif; other site 1138308000488 Walker B; other site 1138308000489 D-loop; other site 1138308000490 H-loop/switch region; other site 1138308000491 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1138308000492 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1138308000493 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1138308000494 putative ligand binding site [chemical binding]; other site 1138308000495 xylose isomerase; Provisional; Region: PRK05474 1138308000496 xylose isomerase; Region: xylose_isom_A; TIGR02630 1138308000497 xylulokinase; Provisional; Region: PRK15027 1138308000498 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1138308000499 N- and C-terminal domain interface [polypeptide binding]; other site 1138308000500 active site 1138308000501 MgATP binding site [chemical binding]; other site 1138308000502 catalytic site [active] 1138308000503 metal binding site [ion binding]; metal-binding site 1138308000504 xylulose binding site [chemical binding]; other site 1138308000505 homodimer interface [polypeptide binding]; other site 1138308000506 Isochorismatase family; Region: Isochorismatase; pfam00857 1138308000507 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 1138308000508 catalytic triad [active] 1138308000509 conserved cis-peptide bond; other site 1138308000510 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1138308000511 conserved cys residue [active] 1138308000512 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308000513 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1138308000514 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1138308000515 YsaB-like lipoprotein; Region: YsaB; pfam13983 1138308000516 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 1138308000517 dimer interface [polypeptide binding]; other site 1138308000518 motif 1; other site 1138308000519 active site 1138308000520 motif 2; other site 1138308000521 motif 3; other site 1138308000522 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1138308000523 DALR anticodon binding domain; Region: DALR_1; pfam05746 1138308000524 Predicted transcriptional regulator [Transcription]; Region: COG2944 1138308000525 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 1138308000526 salt bridge; other site 1138308000527 non-specific DNA binding site [nucleotide binding]; other site 1138308000528 sequence-specific DNA binding site [nucleotide binding]; other site 1138308000529 small toxic polypeptide; Provisional; Region: PRK09738 1138308000530 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 1138308000531 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1138308000532 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1138308000533 dimerization interface [polypeptide binding]; other site 1138308000534 ligand binding site [chemical binding]; other site 1138308000535 NADP binding site [chemical binding]; other site 1138308000536 catalytic site [active] 1138308000537 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 1138308000538 D-galactonate transporter; Region: 2A0114; TIGR00893 1138308000539 putative substrate translocation pore; other site 1138308000540 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1138308000541 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1138308000542 substrate binding site [chemical binding]; other site 1138308000543 ATP binding site [chemical binding]; other site 1138308000544 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1138308000545 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308000546 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308000547 DNA binding site [nucleotide binding] 1138308000548 domain linker motif; other site 1138308000549 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1138308000550 putative dimerization interface [polypeptide binding]; other site 1138308000551 putative ligand binding site [chemical binding]; other site 1138308000552 zinc/cadmium-binding protein; Provisional; Region: PRK10306 1138308000553 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1138308000554 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1138308000555 ligand binding site [chemical binding]; other site 1138308000556 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 1138308000557 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1138308000558 molybdopterin cofactor binding site [chemical binding]; other site 1138308000559 substrate binding site [chemical binding]; other site 1138308000560 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 1138308000561 molybdopterin cofactor binding site; other site 1138308000562 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1138308000563 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308000564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1138308000565 Coenzyme A binding pocket [chemical binding]; other site 1138308000566 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1138308000567 Autotransporter beta-domain; Region: Autotransporter; cl17461 1138308000568 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1138308000569 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 1138308000570 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1138308000571 phosphoethanolamine transferase; Provisional; Region: PRK11560 1138308000572 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1138308000573 Sulfatase; Region: Sulfatase; pfam00884 1138308000574 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1138308000575 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1138308000576 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1138308000577 peptide binding site [polypeptide binding]; other site 1138308000578 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1138308000579 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 1138308000580 dimer interface [polypeptide binding]; other site 1138308000581 conserved gate region; other site 1138308000582 putative PBP binding loops; other site 1138308000583 ABC-ATPase subunit interface; other site 1138308000584 dipeptide transporter; Provisional; Region: PRK10913 1138308000585 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1138308000586 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 1138308000587 dimer interface [polypeptide binding]; other site 1138308000588 conserved gate region; other site 1138308000589 putative PBP binding loops; other site 1138308000590 ABC-ATPase subunit interface; other site 1138308000591 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1138308000592 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308000593 Walker A/P-loop; other site 1138308000594 ATP binding site [chemical binding]; other site 1138308000595 Q-loop/lid; other site 1138308000596 ABC transporter signature motif; other site 1138308000597 Walker B; other site 1138308000598 D-loop; other site 1138308000599 H-loop/switch region; other site 1138308000600 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1138308000601 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1138308000602 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308000603 Walker A/P-loop; other site 1138308000604 ATP binding site [chemical binding]; other site 1138308000605 Q-loop/lid; other site 1138308000606 ABC transporter signature motif; other site 1138308000607 Walker B; other site 1138308000608 D-loop; other site 1138308000609 H-loop/switch region; other site 1138308000610 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1138308000611 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 1138308000612 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1138308000613 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1138308000614 putative diguanylate cyclase; Provisional; Region: PRK13561 1138308000615 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; cl01054 1138308000616 dimerization interface [polypeptide binding]; other site 1138308000617 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308000618 metal binding site [ion binding]; metal-binding site 1138308000619 active site 1138308000620 I-site; other site 1138308000621 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 1138308000622 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1138308000623 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1138308000624 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1138308000625 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1138308000626 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1138308000627 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1138308000628 substrate binding site [chemical binding]; other site 1138308000629 ATP binding site [chemical binding]; other site 1138308000630 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 1138308000631 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1138308000632 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1138308000633 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 1138308000634 metabolite-proton symporter; Region: 2A0106; TIGR00883 1138308000635 putative substrate translocation pore; other site 1138308000636 inner membrane protein YhjD; Region: TIGR00766 1138308000637 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308000638 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308000639 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 1138308000640 putative effector binding pocket; other site 1138308000641 putative dimerization interface [polypeptide binding]; other site 1138308000642 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1138308000643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308000644 NAD(P) binding site [chemical binding]; other site 1138308000645 active site 1138308000646 hypothetical protein; Provisional; Region: PRK10053 1138308000647 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1138308000648 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1138308000649 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 1138308000650 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1138308000651 active site 1138308000652 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 1138308000653 FeS/SAM binding site; other site 1138308000654 glutathione reductase; Validated; Region: PRK06116 1138308000655 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1138308000656 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308000657 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1138308000658 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1138308000659 oligopeptidase A; Provisional; Region: PRK10911 1138308000660 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1138308000661 active site 1138308000662 Zn binding site [ion binding]; other site 1138308000663 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 1138308000664 S-adenosylmethionine binding site [chemical binding]; other site 1138308000665 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1138308000666 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 1138308000667 Ligand Binding Site [chemical binding]; other site 1138308000668 universal stress protein UspB; Provisional; Region: PRK04960 1138308000669 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1138308000670 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1138308000671 Predicted flavoproteins [General function prediction only]; Region: COG2081 1138308000672 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1138308000673 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1138308000674 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1138308000675 NlpC/P60 family; Region: NLPC_P60; pfam00877 1138308000676 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1138308000677 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1138308000678 major facilitator superfamily transporter; Provisional; Region: PRK05122 1138308000679 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 1138308000680 putative substrate translocation pore; other site 1138308000681 hypothetical protein; Provisional; Region: PRK11615 1138308000682 hypothetical protein; Provisional; Region: PRK11212 1138308000683 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 1138308000684 CPxP motif; other site 1138308000685 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1138308000686 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1138308000687 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1138308000688 DctM-like transporters; Region: DctM; pfam06808 1138308000689 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1138308000690 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 1138308000691 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 1138308000692 metal-binding site [ion binding] 1138308000693 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1138308000694 Predicted membrane protein [Function unknown]; Region: COG3714 1138308000695 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 1138308000696 hypothetical protein; Provisional; Region: PRK10910 1138308000697 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1138308000698 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 1138308000699 S-adenosylmethionine binding site [chemical binding]; other site 1138308000700 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1138308000701 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1138308000702 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1138308000703 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 1138308000704 P loop; other site 1138308000705 GTP binding site [chemical binding]; other site 1138308000706 cell division protein FtsE; Provisional; Region: PRK10908 1138308000707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308000708 Walker A/P-loop; other site 1138308000709 ATP binding site [chemical binding]; other site 1138308000710 Q-loop/lid; other site 1138308000711 ABC transporter signature motif; other site 1138308000712 Walker B; other site 1138308000713 D-loop; other site 1138308000714 H-loop/switch region; other site 1138308000715 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1138308000716 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1138308000717 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1138308000718 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1138308000719 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 1138308000720 DNA binding residues [nucleotide binding] 1138308000721 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 1138308000722 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308000723 DNA-binding site [nucleotide binding]; DNA binding site 1138308000724 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 1138308000725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308000726 homodimer interface [polypeptide binding]; other site 1138308000727 catalytic residue [active] 1138308000728 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1138308000729 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 1138308000730 inhibitor-cofactor binding pocket; inhibition site 1138308000731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308000732 catalytic residue [active] 1138308000733 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1138308000734 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1138308000735 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1138308000736 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 1138308000737 dimerization interface [polypeptide binding]; other site 1138308000738 ligand binding site [chemical binding]; other site 1138308000739 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 1138308000740 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1138308000741 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1138308000742 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 1138308000743 TM-ABC transporter signature motif; other site 1138308000744 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1138308000745 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1138308000746 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 1138308000747 TM-ABC transporter signature motif; other site 1138308000748 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1138308000749 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1138308000750 Walker A/P-loop; other site 1138308000751 ATP binding site [chemical binding]; other site 1138308000752 Q-loop/lid; other site 1138308000753 ABC transporter signature motif; other site 1138308000754 Walker B; other site 1138308000755 D-loop; other site 1138308000756 H-loop/switch region; other site 1138308000757 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 1138308000758 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1138308000759 Walker A/P-loop; other site 1138308000760 ATP binding site [chemical binding]; other site 1138308000761 Q-loop/lid; other site 1138308000762 ABC transporter signature motif; other site 1138308000763 Walker B; other site 1138308000764 D-loop; other site 1138308000765 H-loop/switch region; other site 1138308000766 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 1138308000767 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1138308000768 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 1138308000769 dimer interface [polypeptide binding]; other site 1138308000770 conserved gate region; other site 1138308000771 putative PBP binding loops; other site 1138308000772 ABC-ATPase subunit interface; other site 1138308000773 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1138308000774 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 1138308000775 dimer interface [polypeptide binding]; other site 1138308000776 conserved gate region; other site 1138308000777 putative PBP binding loops; other site 1138308000778 ABC-ATPase subunit interface; other site 1138308000779 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1138308000780 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1138308000781 Walker A/P-loop; other site 1138308000782 ATP binding site [chemical binding]; other site 1138308000783 Q-loop/lid; other site 1138308000784 ABC transporter signature motif; other site 1138308000785 Walker B; other site 1138308000786 D-loop; other site 1138308000787 H-loop/switch region; other site 1138308000788 TOBE domain; Region: TOBE_2; pfam08402 1138308000789 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1138308000790 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1138308000791 putative active site [active] 1138308000792 catalytic site [active] 1138308000793 putative metal binding site [ion binding]; other site 1138308000794 hypothetical protein; Provisional; Region: PRK10350 1138308000795 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 1138308000796 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 1138308000797 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1138308000798 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308000799 Coenzyme A binding pocket [chemical binding]; other site 1138308000800 putative oxidoreductase; Provisional; Region: PRK10206 1138308000801 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1138308000802 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1138308000803 Pirin-related protein [General function prediction only]; Region: COG1741 1138308000804 Pirin; Region: Pirin; pfam02678 1138308000805 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1138308000806 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308000807 DNA binding site [nucleotide binding] 1138308000808 domain linker motif; other site 1138308000809 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1138308000810 putative ligand binding site [chemical binding]; other site 1138308000811 putative dimerization interface [polypeptide binding]; other site 1138308000812 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1138308000813 ATP-binding site [chemical binding]; other site 1138308000814 Gluconate-6-phosphate binding site [chemical binding]; other site 1138308000815 low affinity gluconate transporter; Provisional; Region: PRK10472 1138308000816 gluconate transporter; Region: gntP; TIGR00791 1138308000817 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1138308000818 Fic/DOC family; Region: Fic; pfam02661 1138308000819 putative antibiotic transporter; Provisional; Region: PRK10739 1138308000820 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1138308000821 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1138308000822 glycogen branching enzyme; Provisional; Region: PRK05402 1138308000823 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1138308000824 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1138308000825 active site 1138308000826 catalytic site [active] 1138308000827 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1138308000828 glycogen debranching enzyme; Provisional; Region: PRK03705 1138308000829 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 1138308000830 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1138308000831 active site 1138308000832 catalytic site [active] 1138308000833 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1138308000834 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1138308000835 ligand binding site; other site 1138308000836 oligomer interface; other site 1138308000837 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1138308000838 dimer interface [polypeptide binding]; other site 1138308000839 N-terminal domain interface [polypeptide binding]; other site 1138308000840 sulfate 1 binding site; other site 1138308000841 glycogen synthase; Provisional; Region: glgA; PRK00654 1138308000842 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 1138308000843 ADP-binding pocket [chemical binding]; other site 1138308000844 homodimer interface [polypeptide binding]; other site 1138308000845 glycogen phosphorylase; Provisional; Region: PRK14986 1138308000846 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1138308000847 homodimer interface [polypeptide binding]; other site 1138308000848 active site pocket [active] 1138308000849 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308000850 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308000851 metal binding site [ion binding]; metal-binding site 1138308000852 active site 1138308000853 I-site; other site 1138308000854 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1138308000855 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 1138308000856 active site residue [active] 1138308000857 intramembrane serine protease GlpG; Provisional; Region: PRK10907 1138308000858 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 1138308000859 Rhomboid family; Region: Rhomboid; cl11446 1138308000860 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1138308000861 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1138308000862 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1138308000863 transcriptional regulator MalT; Provisional; Region: PRK04841 1138308000864 AAA ATPase domain; Region: AAA_16; pfam13191 1138308000865 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 1138308000866 DNA binding residues [nucleotide binding] 1138308000867 dimerization interface [polypeptide binding]; other site 1138308000868 maltodextrin phosphorylase; Provisional; Region: PRK14985 1138308000869 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1138308000870 active site pocket [active] 1138308000871 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1138308000872 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1138308000873 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 1138308000874 DNA-binding site [nucleotide binding]; DNA binding site 1138308000875 RNA-binding motif; other site 1138308000876 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1138308000877 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1138308000878 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1138308000879 DNA utilization protein GntX; Provisional; Region: PRK11595 1138308000880 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1138308000881 active site 1138308000882 carboxylesterase BioH; Provisional; Region: PRK10349 1138308000883 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1138308000884 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1138308000885 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 1138308000886 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 1138308000887 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1138308000888 G1 box; other site 1138308000889 GTP/Mg2+ binding site [chemical binding]; other site 1138308000890 Switch I region; other site 1138308000891 G2 box; other site 1138308000892 G3 box; other site 1138308000893 Switch II region; other site 1138308000894 G4 box; other site 1138308000895 G5 box; other site 1138308000896 Nucleoside recognition; Region: Gate; pfam07670 1138308000897 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1138308000898 Nucleoside recognition; Region: Gate; pfam07670 1138308000899 FeoA domain; Region: FeoA; cl00838 1138308000900 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1138308000901 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1138308000902 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1138308000903 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 1138308000904 RNA binding site [nucleotide binding]; other site 1138308000905 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1138308000906 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1138308000907 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1138308000908 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1138308000909 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 1138308000910 active site 1138308000911 phosphorylation site [posttranslational modification] 1138308000912 intermolecular recognition site; other site 1138308000913 dimerization interface [polypeptide binding]; other site 1138308000914 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 1138308000915 DNA binding site [nucleotide binding] 1138308000916 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1138308000917 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 1138308000918 dimerization interface [polypeptide binding]; other site 1138308000919 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 1138308000920 dimer interface [polypeptide binding]; other site 1138308000921 phosphorylation site [posttranslational modification] 1138308000922 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 1138308000923 ATP binding site [chemical binding]; other site 1138308000924 G-X-G motif; other site 1138308000925 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1138308000926 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_ATP; cd00484 1138308000927 active site 1138308000928 substrate-binding site [chemical binding]; other site 1138308000929 metal-binding site [ion binding] 1138308000930 ATP binding site [chemical binding]; other site 1138308000931 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 1138308000932 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1138308000933 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 1138308000934 dimerization interface [polypeptide binding]; other site 1138308000935 domain crossover interface; other site 1138308000936 redox-dependent activation switch; other site 1138308000937 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 1138308000938 RNA binding surface [nucleotide binding]; other site 1138308000939 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1138308000940 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 1138308000941 motif II; other site 1138308000942 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 1138308000943 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1138308000944 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 1138308000945 ADP-ribose binding site [chemical binding]; other site 1138308000946 dimer interface [polypeptide binding]; other site 1138308000947 active site 1138308000948 nudix motif; other site 1138308000949 metal binding site [ion binding]; metal-binding site 1138308000950 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1138308000951 Transglycosylase; Region: Transgly; pfam00912 1138308000952 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1138308000953 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1138308000954 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 1138308000955 potential frameshift: common BLAST hit: gi|156936449|ref|YP_001440365.1| outer membrane porin HofQ 1138308000956 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1138308000957 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1138308000958 shikimate kinase; Reviewed; Region: aroK; PRK00131 1138308000959 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 1138308000960 ADP binding site [chemical binding]; other site 1138308000961 magnesium binding site [ion binding]; other site 1138308000962 putative shikimate binding site; other site 1138308000963 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1138308000964 active site 1138308000965 dimer interface [polypeptide binding]; other site 1138308000966 metal binding site [ion binding]; metal-binding site 1138308000967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 1138308000968 cell division protein DamX; Validated; Region: PRK10905 1138308000969 DNA adenine methylase; Provisional; Region: PRK10904 1138308000970 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1138308000971 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 1138308000972 substrate binding site [chemical binding]; other site 1138308000973 hexamer interface [polypeptide binding]; other site 1138308000974 metal binding site [ion binding]; metal-binding site 1138308000975 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1138308000976 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1138308000977 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 1138308000978 motif II; other site 1138308000979 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1138308000980 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1138308000981 active site 1138308000982 HIGH motif; other site 1138308000983 dimer interface [polypeptide binding]; other site 1138308000984 KMSKS motif; other site 1138308000985 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 1138308000986 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 1138308000987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308000988 DNA-binding site [nucleotide binding]; DNA binding site 1138308000989 UTRA domain; Region: UTRA; pfam07702 1138308000990 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 1138308000991 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1138308000992 substrate binding site [chemical binding]; other site 1138308000993 ATP binding site [chemical binding]; other site 1138308000994 fructoselysine 3-epimerase; Provisional; Region: PRK09856 1138308000995 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1138308000996 AP (apurinic/apyrimidinic) site pocket; other site 1138308000997 DNA interaction; other site 1138308000998 Metal-binding active site; metal-binding site 1138308000999 fructoselysine-6-P-deglycase; Provisional; Region: frlB; PRK11382 1138308001000 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 1138308001001 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 1138308001002 dimer interface [polypeptide binding]; other site 1138308001003 active site 1138308001004 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 1138308001005 hypothetical protein; Provisional; Region: PHA02764 1138308001006 siroheme synthase; Provisional; Region: cysG; PRK10637 1138308001007 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1138308001008 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1138308001009 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1138308001010 active site 1138308001011 SAM binding site [chemical binding]; other site 1138308001012 homodimer interface [polypeptide binding]; other site 1138308001013 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1138308001014 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1138308001015 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308001016 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1138308001017 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1138308001018 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1138308001019 putative transporter; Provisional; Region: PRK03699 1138308001020 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 1138308001021 putative substrate translocation pore; other site 1138308001022 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1138308001023 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 1138308001024 substrate binding site [chemical binding]; other site 1138308001025 hypothetical protein; Provisional; Region: PRK10204 1138308001026 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1138308001027 cell filamentation protein Fic; Provisional; Region: PRK10347 1138308001028 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1138308001029 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1138308001030 glutamine binding [chemical binding]; other site 1138308001031 catalytic triad [active] 1138308001032 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1138308001033 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 1138308001034 inhibitor-cofactor binding pocket; inhibition site 1138308001035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308001036 catalytic residue [active] 1138308001037 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1138308001038 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1138308001039 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1138308001040 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1138308001041 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 1138308001042 ligand binding site [chemical binding]; other site 1138308001043 flexible hinge region; other site 1138308001044 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 1138308001045 putative switch regulator; other site 1138308001046 non-specific DNA interactions [nucleotide binding]; other site 1138308001047 DNA binding site [nucleotide binding] 1138308001048 sequence specific DNA binding site [nucleotide binding]; other site 1138308001049 putative cAMP binding site [chemical binding]; other site 1138308001050 hypothetical protein; Provisional; Region: PRK10738 1138308001051 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to...; Region: PRK_like; cd02029 1138308001052 active site 1138308001053 hypothetical protein; Provisional; Region: PRK04966 1138308001054 putative hydrolase; Provisional; Region: PRK10985 1138308001055 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1138308001056 nudix motif; other site 1138308001057 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1138308001058 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 1138308001059 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1138308001060 active site 1138308001061 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1138308001062 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 1138308001063 active site 1138308001064 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 1138308001065 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1138308001066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308001067 Walker A/P-loop; other site 1138308001068 ATP binding site [chemical binding]; other site 1138308001069 Q-loop/lid; other site 1138308001070 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308001071 ABC transporter signature motif; other site 1138308001072 Walker B; other site 1138308001073 D-loop; other site 1138308001074 ABC transporter; Region: ABC_tran_2; pfam12848 1138308001075 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308001076 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1138308001077 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 1138308001078 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1138308001079 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1138308001080 TrkA-N domain; Region: TrkA_N; pfam02254 1138308001081 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 1138308001082 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1138308001083 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1138308001084 SlyX; Region: SlyX; pfam04102 1138308001085 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 1138308001086 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1138308001087 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1138308001088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1138308001089 YheO-like PAS domain; Region: PAS_6; pfam08348 1138308001090 HTH domain; Region: HTH_22; pfam13309 1138308001091 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1138308001092 sulfur relay protein TusC; Validated; Region: PRK00211 1138308001093 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 1138308001094 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 1138308001095 S17 interaction site [polypeptide binding]; other site 1138308001096 S8 interaction site; other site 1138308001097 16S rRNA interaction site [nucleotide binding]; other site 1138308001098 streptomycin interaction site [chemical binding]; other site 1138308001099 23S rRNA interaction site [nucleotide binding]; other site 1138308001100 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1138308001101 30S ribosomal protein S7; Validated; Region: PRK05302 1138308001102 elongation factor G; Reviewed; Region: PRK00007 1138308001103 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1138308001104 G1 box; other site 1138308001105 putative GEF interaction site [polypeptide binding]; other site 1138308001106 GTP/Mg2+ binding site [chemical binding]; other site 1138308001107 Switch I region; other site 1138308001108 G2 box; other site 1138308001109 G3 box; other site 1138308001110 Switch II region; other site 1138308001111 G4 box; other site 1138308001112 G5 box; other site 1138308001113 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 1138308001114 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 1138308001115 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 1138308001116 elongation factor Tu; Reviewed; Region: PRK00049 1138308001117 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1138308001118 G1 box; other site 1138308001119 GEF interaction site [polypeptide binding]; other site 1138308001120 GTP/Mg2+ binding site [chemical binding]; other site 1138308001121 Switch I region; other site 1138308001122 G2 box; other site 1138308001123 G3 box; other site 1138308001124 Switch II region; other site 1138308001125 G4 box; other site 1138308001126 G5 box; other site 1138308001127 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 1138308001128 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 1138308001129 Antibiotic Binding Site [chemical binding]; other site 1138308001130 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 1138308001131 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1138308001132 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1138308001133 heme binding site [chemical binding]; other site 1138308001134 ferroxidase pore; other site 1138308001135 ferroxidase diiron center [ion binding]; other site 1138308001136 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 1138308001137 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1138308001138 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1138308001139 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 1138308001140 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1138308001141 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1138308001142 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1138308001143 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1138308001144 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1138308001145 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1138308001146 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 1138308001147 protein-rRNA interface [nucleotide binding]; other site 1138308001148 putative translocon binding site; other site 1138308001149 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1138308001150 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 1138308001151 G-X-X-G motif; other site 1138308001152 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1138308001153 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 1138308001154 23S rRNA interface [nucleotide binding]; other site 1138308001155 5S rRNA interface [nucleotide binding]; other site 1138308001156 putative antibiotic binding site [chemical binding]; other site 1138308001157 L25 interface [polypeptide binding]; other site 1138308001158 L27 interface [polypeptide binding]; other site 1138308001159 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 1138308001160 23S rRNA interface [nucleotide binding]; other site 1138308001161 putative translocon interaction site; other site 1138308001162 signal recognition particle (SRP54) interaction site; other site 1138308001163 L23 interface [polypeptide binding]; other site 1138308001164 trigger factor interaction site; other site 1138308001165 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1138308001166 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1138308001167 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1138308001168 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1138308001169 RNA binding site [nucleotide binding]; other site 1138308001170 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1138308001171 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1138308001172 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1138308001173 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1138308001174 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1138308001175 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1138308001176 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1138308001177 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1138308001178 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 1138308001179 23S rRNA interface [nucleotide binding]; other site 1138308001180 5S rRNA interface [nucleotide binding]; other site 1138308001181 L27 interface [polypeptide binding]; other site 1138308001182 L5 interface [polypeptide binding]; other site 1138308001183 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1138308001184 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1138308001185 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1138308001186 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 1138308001187 23S rRNA binding site [nucleotide binding]; other site 1138308001188 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1138308001189 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1138308001190 SecY translocase; Region: SecY; pfam00344 1138308001191 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1138308001192 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1138308001193 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1138308001194 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1138308001195 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 1138308001196 RNA binding surface [nucleotide binding]; other site 1138308001197 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1138308001198 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1138308001199 alphaNTD homodimer interface [polypeptide binding]; other site 1138308001200 alphaNTD - beta interaction site [polypeptide binding]; other site 1138308001201 alphaNTD - beta' interaction site [polypeptide binding]; other site 1138308001202 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1138308001203 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1138308001204 hypothetical protein; Provisional; Region: PRK10203 1138308001205 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1138308001206 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1138308001207 DNA binding residues [nucleotide binding] 1138308001208 dimer interface [polypeptide binding]; other site 1138308001209 metal binding site [ion binding]; metal-binding site 1138308001210 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1138308001211 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1138308001212 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1138308001213 TrkA-N domain; Region: TrkA_N; pfam02254 1138308001214 TrkA-C domain; Region: TrkA_C; pfam02080 1138308001215 TrkA-N domain; Region: TrkA_N; pfam02254 1138308001216 TrkA-C domain; Region: TrkA_C; pfam02080 1138308001217 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1138308001218 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 1138308001219 putative RNA binding site [nucleotide binding]; other site 1138308001220 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 1138308001221 S-adenosylmethionine binding site [chemical binding]; other site 1138308001222 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1138308001223 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1138308001224 putative active site [active] 1138308001225 substrate binding site [chemical binding]; other site 1138308001226 putative cosubstrate binding site; other site 1138308001227 catalytic site [active] 1138308001228 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1138308001229 substrate binding site [chemical binding]; other site 1138308001230 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 1138308001231 active site 1138308001232 catalytic residues [active] 1138308001233 metal binding site [ion binding]; metal-binding site 1138308001234 hypothetical protein; Provisional; Region: PRK10736 1138308001235 DNA protecting protein DprA; Region: dprA; TIGR00732 1138308001236 hypothetical protein; Validated; Region: PRK03430 1138308001237 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1138308001238 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1138308001239 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 1138308001240 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1138308001241 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1138308001242 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1138308001243 shikimate binding site; other site 1138308001244 NAD(P) binding site [chemical binding]; other site 1138308001245 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1138308001246 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1138308001247 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 1138308001248 trimer interface [polypeptide binding]; other site 1138308001249 putative metal binding site [ion binding]; other site 1138308001250 homoserine O-succinyltransferase; Provisional; Region: PRK05368 1138308001251 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1138308001252 proposed active site lysine [active] 1138308001253 conserved cys residue [active] 1138308001254 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 1138308001255 malate synthase A; Region: malate_syn_A; TIGR01344 1138308001256 active site 1138308001257 isocitrate lyase; Provisional; Region: PRK15063 1138308001258 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 1138308001259 tetramer interface [polypeptide binding]; other site 1138308001260 active site 1138308001261 Mg2+/Mn2+ binding site [ion binding]; other site 1138308001262 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1138308001263 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1138308001264 transcriptional repressor IclR; Provisional; Region: PRK11569 1138308001265 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1138308001266 Bacterial transcriptional regulator; Region: IclR; pfam01614 1138308001267 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1138308001268 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1138308001269 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 1138308001270 substrate binding pocket [chemical binding]; other site 1138308001271 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 1138308001272 B12 binding site [chemical binding]; other site 1138308001273 cobalt ligand [ion binding]; other site 1138308001274 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1138308001275 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1138308001276 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1138308001277 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1138308001278 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1138308001279 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1138308001280 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1138308001281 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 1138308001282 non-specific DNA binding site [nucleotide binding]; other site 1138308001283 salt bridge; other site 1138308001284 sequence-specific DNA binding site [nucleotide binding]; other site 1138308001285 hypothetical protein; Provisional; Region: PRK10515 1138308001286 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1138308001287 Sodium Bile acid symporter family; Region: SBF; pfam01758 1138308001288 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 1138308001289 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 1138308001290 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 1138308001291 Walker A motif; other site 1138308001292 ATP binding site [chemical binding]; other site 1138308001293 Walker B motif; other site 1138308001294 arginine finger; other site 1138308001295 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1138308001296 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 1138308001297 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1138308001298 hypothetical protein; Reviewed; Region: PRK09588 1138308001299 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 1138308001300 aspartate kinase III; Validated; Region: PRK09084 1138308001301 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1138308001302 nucleotide binding site [chemical binding]; other site 1138308001303 substrate binding site [chemical binding]; other site 1138308001304 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1138308001305 lysine allosteric regulatory site; other site 1138308001306 dimer interface [polypeptide binding]; other site 1138308001307 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1138308001308 dimer interface [polypeptide binding]; other site 1138308001309 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1138308001310 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 1138308001311 active site 1138308001312 dimer interface [polypeptide binding]; other site 1138308001313 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 1138308001314 dimer interface [polypeptide binding]; other site 1138308001315 active site 1138308001316 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 1138308001317 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 1138308001318 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 1138308001319 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 1138308001320 putative trimer interface [polypeptide binding]; other site 1138308001321 putative active site [active] 1138308001322 putative substrate binding site [chemical binding]; other site 1138308001323 putative CoA binding site [chemical binding]; other site 1138308001324 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1138308001325 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 1138308001326 dimer interface [polypeptide binding]; other site 1138308001327 conserved gate region; other site 1138308001328 putative PBP binding loops; other site 1138308001329 ABC-ATPase subunit interface; other site 1138308001330 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 1138308001331 dimer interface [polypeptide binding]; other site 1138308001332 conserved gate region; other site 1138308001333 ABC-ATPase subunit interface; other site 1138308001334 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1138308001335 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1138308001336 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1138308001337 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1138308001338 Walker A/P-loop; other site 1138308001339 ATP binding site [chemical binding]; other site 1138308001340 Q-loop/lid; other site 1138308001341 ABC transporter signature motif; other site 1138308001342 Walker B; other site 1138308001343 D-loop; other site 1138308001344 H-loop/switch region; other site 1138308001345 TOBE domain; Region: TOBE_2; pfam08402 1138308001346 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1138308001347 trimer interface; other site 1138308001348 sugar binding site [chemical binding]; other site 1138308001349 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1138308001350 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 1138308001351 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1138308001352 UbiA prenyltransferase family; Region: UbiA; pfam01040 1138308001353 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1138308001354 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1138308001355 putative acyl-acceptor binding pocket; other site 1138308001356 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1138308001357 LexA repressor; Validated; Region: PRK00215 1138308001358 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1138308001359 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 1138308001360 Catalytic site [active] 1138308001361 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1138308001362 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1138308001363 hypothetical protein; Provisional; Region: PRK10428 1138308001364 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1138308001365 metal binding site 2 [ion binding]; metal-binding site 1138308001366 putative DNA binding helix; other site 1138308001367 metal binding site 1 [ion binding]; metal-binding site 1138308001368 dimer interface [polypeptide binding]; other site 1138308001369 structural Zn2+ binding site [ion binding]; other site 1138308001370 Cupin domain; Region: Cupin_2; cl17218 1138308001371 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 1138308001372 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1138308001373 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 1138308001374 FMN binding site [chemical binding]; other site 1138308001375 active site 1138308001376 catalytic residues [active] 1138308001377 substrate binding site [chemical binding]; other site 1138308001378 phage shock protein G; Reviewed; Region: pspG; PRK09459 1138308001379 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1138308001380 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1138308001381 NADP binding site [chemical binding]; other site 1138308001382 dimer interface [polypeptide binding]; other site 1138308001383 replicative DNA helicase; Provisional; Region: PRK08006 1138308001384 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1138308001385 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 1138308001386 Walker A motif; other site 1138308001387 ATP binding site [chemical binding]; other site 1138308001388 Walker B motif; other site 1138308001389 DNA binding loops [nucleotide binding] 1138308001390 alanine racemase; Reviewed; Region: alr; PRK00053 1138308001391 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1138308001392 active site 1138308001393 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1138308001394 substrate binding site [chemical binding]; other site 1138308001395 catalytic residues [active] 1138308001396 dimer interface [polypeptide binding]; other site 1138308001397 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1138308001398 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 1138308001399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308001400 homodimer interface [polypeptide binding]; other site 1138308001401 catalytic residue [active] 1138308001402 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1138308001403 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1138308001404 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1138308001405 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1138308001406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1138308001407 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1138308001408 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1138308001409 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1138308001410 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1138308001411 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1138308001412 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 1138308001413 dimer interface [polypeptide binding]; other site 1138308001414 ssDNA binding site [nucleotide binding]; other site 1138308001415 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1138308001416 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1138308001417 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308001418 metal binding site [ion binding]; metal-binding site 1138308001419 active site 1138308001420 I-site; other site 1138308001421 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1138308001422 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1138308001423 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 1138308001424 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1138308001425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308001426 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 1138308001427 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1138308001428 DNA binding residues [nucleotide binding] 1138308001429 dimer interface [polypeptide binding]; other site 1138308001430 [2Fe-2S] cluster binding site [ion binding]; other site 1138308001431 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1138308001432 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1138308001433 putative C-terminal domain interface [polypeptide binding]; other site 1138308001434 putative GSH binding site (G-site) [chemical binding]; other site 1138308001435 putative dimer interface [polypeptide binding]; other site 1138308001436 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 1138308001437 putative N-terminal domain interface [polypeptide binding]; other site 1138308001438 putative dimer interface [polypeptide binding]; other site 1138308001439 putative substrate binding pocket (H-site) [chemical binding]; other site 1138308001440 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1138308001441 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1138308001442 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1138308001443 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1138308001444 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1138308001445 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1138308001446 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1138308001447 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1138308001448 Na binding site [ion binding]; other site 1138308001449 Predicted membrane protein [Function unknown]; Region: COG3162 1138308001450 acetyl-CoA synthetase; Provisional; Region: PRK00174 1138308001451 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1138308001452 active site 1138308001453 CoA binding site [chemical binding]; other site 1138308001454 acyl-activating enzyme (AAE) consensus motif; other site 1138308001455 AMP binding site [chemical binding]; other site 1138308001456 acetate binding site [chemical binding]; other site 1138308001457 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 1138308001458 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1138308001459 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 1138308001460 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 1138308001461 ATP binding site [chemical binding]; other site 1138308001462 Mg2+ binding site [ion binding]; other site 1138308001463 G-X-G motif; other site 1138308001464 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 1138308001465 hypothetical protein; Provisional; Region: PRK10220 1138308001466 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1138308001467 PhnA protein; Region: PhnA; pfam03831 1138308001468 hypothetical protein; Provisional; Region: PRK09866 1138308001469 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1138308001470 G1 box; other site 1138308001471 GTP/Mg2+ binding site [chemical binding]; other site 1138308001472 G2 box; other site 1138308001473 Switch I region; other site 1138308001474 G3 box; other site 1138308001475 Switch II region; other site 1138308001476 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1138308001477 G3 box; other site 1138308001478 Switch II region; other site 1138308001479 G4 box; other site 1138308001480 G5 box; other site 1138308001481 YjcZ-like protein; Region: YjcZ; pfam13990 1138308001482 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 1138308001483 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 1138308001484 putative S-transferase; Provisional; Region: PRK11752 1138308001485 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 1138308001486 C-terminal domain interface [polypeptide binding]; other site 1138308001487 GSH binding site (G-site) [chemical binding]; other site 1138308001488 dimer interface [polypeptide binding]; other site 1138308001489 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1138308001490 dimer interface [polypeptide binding]; other site 1138308001491 N-terminal domain interface [polypeptide binding]; other site 1138308001492 active site 1138308001493 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1138308001494 putative transcriptional regulator; Provisional; Region: PRK11640 1138308001495 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1138308001496 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1138308001497 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1138308001498 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 1138308001499 DsbD alpha interface [polypeptide binding]; other site 1138308001500 catalytic residues [active] 1138308001501 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 1138308001502 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1138308001503 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1138308001504 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1138308001505 Aspartase; Region: Aspartase; cd01357 1138308001506 active sites [active] 1138308001507 tetramer interface [polypeptide binding]; other site 1138308001508 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1138308001509 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 1138308001510 oligomerisation interface [polypeptide binding]; other site 1138308001511 mobile loop; other site 1138308001512 roof hairpin; other site 1138308001513 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1138308001514 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 1138308001515 ring oligomerisation interface [polypeptide binding]; other site 1138308001516 ATP/Mg binding site [chemical binding]; other site 1138308001517 stacking interactions; other site 1138308001518 hinge regions; other site 1138308001519 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 1138308001520 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1138308001521 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 1138308001522 FeS/SAM binding site; other site 1138308001523 elongation factor P; Validated; Region: PRK00529 1138308001524 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1138308001525 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 1138308001526 RNA binding site [nucleotide binding]; other site 1138308001527 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 1138308001528 RNA binding site [nucleotide binding]; other site 1138308001529 Entericidin EcnA/B family; Region: Entericidin; cl02322 1138308001530 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1138308001531 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 1138308001532 DNA binding residues [nucleotide binding] 1138308001533 dimerization interface [polypeptide binding]; other site 1138308001534 multidrug efflux system protein; Provisional; Region: PRK11431 1138308001535 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 1138308001536 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1138308001537 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 1138308001538 Iron-sulfur protein interface; other site 1138308001539 proximal quinone binding site [chemical binding]; other site 1138308001540 C-subunit interface; other site 1138308001541 distal quinone binding site; other site 1138308001542 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 1138308001543 D-subunit interface [polypeptide binding]; other site 1138308001544 Iron-sulfur protein interface; other site 1138308001545 proximal quinone binding site [chemical binding]; other site 1138308001546 distal quinone binding site [chemical binding]; other site 1138308001547 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1138308001548 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1138308001549 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1138308001550 L-aspartate oxidase; Provisional; Region: PRK06175 1138308001551 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1138308001552 poxB regulator PoxA; Provisional; Region: PRK09350 1138308001553 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 1138308001554 motif 1; other site 1138308001555 dimer interface [polypeptide binding]; other site 1138308001556 active site 1138308001557 motif 2; other site 1138308001558 motif 3; other site 1138308001559 putative mechanosensitive channel protein; Provisional; Region: PRK10929 1138308001560 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1138308001561 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1138308001562 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1138308001563 GTPase RsgA; Reviewed; Region: PRK12288 1138308001564 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1138308001565 RNA binding site [nucleotide binding]; other site 1138308001566 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1138308001567 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1138308001568 GTP/Mg2+ binding site [chemical binding]; other site 1138308001569 G4 box; other site 1138308001570 G5 box; other site 1138308001571 G1 box; other site 1138308001572 Switch I region; other site 1138308001573 G2 box; other site 1138308001574 G3 box; other site 1138308001575 Switch II region; other site 1138308001576 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1138308001577 catalytic site [active] 1138308001578 putative active site [active] 1138308001579 putative substrate binding site [chemical binding]; other site 1138308001580 dimer interface [polypeptide binding]; other site 1138308001581 epoxyqueuosine reductase; Region: TIGR00276 1138308001582 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1138308001583 putative carbohydrate kinase; Provisional; Region: PRK10565 1138308001584 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1138308001585 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 1138308001586 putative substrate binding site [chemical binding]; other site 1138308001587 putative ATP binding site [chemical binding]; other site 1138308001588 ADP-binding protein; Provisional; Region: PRK10646 1138308001589 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1138308001590 AMIN domain; Region: AMIN; pfam11741 1138308001591 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 1138308001592 active site 1138308001593 metal binding site [ion binding]; metal-binding site 1138308001594 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1138308001595 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 1138308001596 ATP binding site [chemical binding]; other site 1138308001597 Mg2+ binding site [ion binding]; other site 1138308001598 G-X-G motif; other site 1138308001599 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 1138308001600 ATP binding site [chemical binding]; other site 1138308001601 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1138308001602 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1138308001603 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1138308001604 bacterial Hfq-like; Region: Hfq; cd01716 1138308001605 hexamer interface [polypeptide binding]; other site 1138308001606 Sm1 motif; other site 1138308001607 RNA binding site [nucleotide binding]; other site 1138308001608 Sm2 motif; other site 1138308001609 GTPase HflX; Provisional; Region: PRK11058 1138308001610 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1138308001611 HflX GTPase family; Region: HflX; cd01878 1138308001612 G1 box; other site 1138308001613 GTP/Mg2+ binding site [chemical binding]; other site 1138308001614 Switch I region; other site 1138308001615 G2 box; other site 1138308001616 G3 box; other site 1138308001617 Switch II region; other site 1138308001618 G4 box; other site 1138308001619 G5 box; other site 1138308001620 FtsH protease regulator HflK; Provisional; Region: PRK10930 1138308001621 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1138308001622 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 1138308001623 FtsH protease regulator HflC; Provisional; Region: PRK11029 1138308001624 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 1138308001625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1138308001626 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1138308001627 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 1138308001628 GDP-binding site [chemical binding]; other site 1138308001629 ACT binding site; other site 1138308001630 IMP binding site; other site 1138308001631 transcriptional repressor NsrR; Provisional; Region: PRK11014 1138308001632 Predicted transcriptional regulator [Transcription]; Region: COG1959 1138308001633 exoribonuclease R; Provisional; Region: PRK11642 1138308001634 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1138308001635 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1138308001636 RNB domain; Region: RNB; pfam00773 1138308001637 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 1138308001638 RNA binding site [nucleotide binding]; other site 1138308001639 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1138308001640 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1138308001641 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1138308001642 Predicted membrane protein [Function unknown]; Region: COG3766 1138308001643 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1138308001644 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1138308001645 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 1138308001646 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1138308001647 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 1138308001648 dimerization interface [polypeptide binding]; other site 1138308001649 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1138308001650 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308001651 dimer interface [polypeptide binding]; other site 1138308001652 putative CheW interface [polypeptide binding]; other site 1138308001653 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1138308001654 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 1138308001655 esterase; Provisional; Region: PRK10566 1138308001656 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1138308001657 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1138308001658 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 1138308001659 dimer interface [polypeptide binding]; other site 1138308001660 ssDNA binding site [nucleotide binding]; other site 1138308001661 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1138308001662 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1138308001663 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1138308001664 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1138308001665 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1138308001666 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 1138308001667 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1138308001668 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1138308001669 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 1138308001670 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1138308001671 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1138308001672 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1138308001673 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1138308001674 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1138308001675 Hemerythrin-like domain; Region: Hr-like; cd12108 1138308001676 Fe binding site [ion binding]; other site 1138308001677 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1138308001678 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1138308001679 dimer interface [polypeptide binding]; other site 1138308001680 ligand binding site [chemical binding]; other site 1138308001681 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 1138308001682 dimerization interface [polypeptide binding]; other site 1138308001683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308001684 dimer interface [polypeptide binding]; other site 1138308001685 putative CheW interface [polypeptide binding]; other site 1138308001686 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1138308001687 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 1138308001688 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1138308001689 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1138308001690 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308001691 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1138308001692 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1138308001693 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1138308001694 NADP binding site [chemical binding]; other site 1138308001695 Predicted transcriptional regulators [Transcription]; Region: COG1733 1138308001696 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1138308001697 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1138308001698 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1138308001699 active site 1138308001700 metal binding site [ion binding]; metal-binding site 1138308001701 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1138308001702 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1138308001703 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1138308001704 active site 1138308001705 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 1138308001706 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 1138308001707 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1138308001708 Domain of unknown function DUF21; Region: DUF21; pfam01595 1138308001709 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 1138308001710 Transporter associated domain; Region: CorC_HlyC; smart01091 1138308001711 Domain of unknown function (DUF1996); Region: DUF1996; pfam09362 1138308001712 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1138308001713 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1138308001714 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1138308001715 Surface antigen; Region: Bac_surface_Ag; pfam01103 1138308001716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1138308001717 Family of unknown function (DUF490); Region: DUF490; pfam04357 1138308001718 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 1138308001719 dimerization interface [polypeptide binding]; other site 1138308001720 putative active site pocket [active] 1138308001721 putative catalytic residue [active] 1138308001722 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 1138308001723 dimerization interface [polypeptide binding]; other site 1138308001724 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1138308001725 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308001726 dimer interface [polypeptide binding]; other site 1138308001727 putative CheW interface [polypeptide binding]; other site 1138308001728 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 1138308001729 dimer interface [polypeptide binding]; other site 1138308001730 substrate binding site [chemical binding]; other site 1138308001731 metal binding sites [ion binding]; metal-binding site 1138308001732 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1138308001733 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1138308001734 putative ligand binding site [chemical binding]; other site 1138308001735 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1138308001736 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1138308001737 Walker A/P-loop; other site 1138308001738 ATP binding site [chemical binding]; other site 1138308001739 Q-loop/lid; other site 1138308001740 ABC transporter signature motif; other site 1138308001741 Walker B; other site 1138308001742 D-loop; other site 1138308001743 H-loop/switch region; other site 1138308001744 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1138308001745 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1138308001746 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 1138308001747 TM-ABC transporter signature motif; other site 1138308001748 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1138308001749 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 1138308001750 TM-ABC transporter signature motif; other site 1138308001751 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1138308001752 dimer interface [polypeptide binding]; other site 1138308001753 ligand binding site [chemical binding]; other site 1138308001754 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; cl01054 1138308001755 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1138308001756 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308001757 dimer interface [polypeptide binding]; other site 1138308001758 putative CheW interface [polypeptide binding]; other site 1138308001759 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 1138308001760 AMP binding site [chemical binding]; other site 1138308001761 metal binding site [ion binding]; metal-binding site 1138308001762 active site 1138308001763 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1138308001764 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1138308001765 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1138308001766 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1138308001767 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 1138308001768 active site 1138308001769 catalytic residues [active] 1138308001770 hypothetical protein; Provisional; Region: PRK05255 1138308001771 peptidase PmbA; Provisional; Region: PRK11040 1138308001772 cytochrome b562; Provisional; Region: PRK15058 1138308001773 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 1138308001774 Glycine-rich SFCGS; Region: Gly_rich_SFCGS; cl11916 1138308001775 conserved hypothetical protein EF_0831/AHA_3912; Region: EF_0831; TIGR03578 1138308001776 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 1138308001777 Domain of unknown function (DUF4310); Region: DUF4310; pfam14187 1138308001778 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 1138308001779 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 1138308001780 active site 1138308001781 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 1138308001782 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 1138308001783 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1138308001784 HTH domain; Region: HTH_11; pfam08279 1138308001785 Mga helix-turn-helix domain; Region: Mga; pfam05043 1138308001786 PRD domain; Region: PRD; pfam00874 1138308001787 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1138308001788 active site 1138308001789 P-loop; other site 1138308001790 phosphorylation site [posttranslational modification] 1138308001791 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 1138308001792 active site 1138308001793 phosphorylation site [posttranslational modification] 1138308001794 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 1138308001795 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1138308001796 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 1138308001797 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 1138308001798 FeS/SAM binding site; other site 1138308001799 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1138308001800 ATP cone domain; Region: ATP-cone; pfam03477 1138308001801 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1138308001802 effector binding site; other site 1138308001803 active site 1138308001804 Zn binding site [ion binding]; other site 1138308001805 glycine loop; other site 1138308001806 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1138308001807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308001808 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 1138308001809 putative effector binding pocket; other site 1138308001810 dimerization interface [polypeptide binding]; other site 1138308001811 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1138308001812 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 1138308001813 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1138308001814 Ca binding site [ion binding]; other site 1138308001815 active site 1138308001816 catalytic site [active] 1138308001817 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1138308001818 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 1138308001819 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308001820 active site turn [active] 1138308001821 phosphorylation site [posttranslational modification] 1138308001822 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1138308001823 trehalose repressor; Provisional; Region: treR; PRK09492 1138308001824 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308001825 DNA binding site [nucleotide binding] 1138308001826 domain linker motif; other site 1138308001827 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 1138308001828 dimerization interface [polypeptide binding]; other site 1138308001829 ligand binding site [chemical binding]; other site 1138308001830 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1138308001831 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308001832 glutaredoxin 2; Provisional; Region: PRK10387 1138308001833 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 1138308001834 C-terminal domain interface [polypeptide binding]; other site 1138308001835 GSH binding site (G-site) [chemical binding]; other site 1138308001836 catalytic residues [active] 1138308001837 putative dimer interface [polypeptide binding]; other site 1138308001838 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 1138308001839 N-terminal domain interface [polypeptide binding]; other site 1138308001840 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1138308001841 lipoprotein LpqB; Provisional; Region: PRK13616 1138308001842 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 1138308001843 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1138308001844 active site 1138308001845 catalytic tetrad [active] 1138308001846 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1138308001847 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1138308001848 dimer interface [polypeptide binding]; other site 1138308001849 active site 1138308001850 metal binding site [ion binding]; metal-binding site 1138308001851 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1138308001852 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308001853 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1138308001854 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308001855 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1138308001856 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1138308001857 cystathionine beta-lyase; Provisional; Region: PRK08114 1138308001858 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 1138308001859 homodimer interface [polypeptide binding]; other site 1138308001860 substrate-cofactor binding pocket; other site 1138308001861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308001862 catalytic residue [active] 1138308001863 biopolymer transport protein ExbB; Provisional; Region: PRK10414 1138308001864 biopolymer transport protein ExbD; Provisional; Region: PRK11267 1138308001865 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1138308001866 oxidoreductase; Provisional; Region: PRK07985 1138308001867 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1138308001868 NAD binding site [chemical binding]; other site 1138308001869 metal binding site [ion binding]; metal-binding site 1138308001870 active site 1138308001871 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 1138308001872 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1138308001873 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1138308001874 hypothetical protein; Provisional; Region: PRK05208 1138308001875 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1138308001876 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1138308001877 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 1138308001878 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1138308001879 methionine cluster; other site 1138308001880 active site 1138308001881 phosphorylation site [posttranslational modification] 1138308001882 metal binding site [ion binding]; metal-binding site 1138308001883 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1138308001884 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1138308001885 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1138308001886 active site 1138308001887 P-loop; other site 1138308001888 phosphorylation site [posttranslational modification] 1138308001889 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308001890 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308001891 DNA binding site [nucleotide binding] 1138308001892 domain linker motif; other site 1138308001893 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 1138308001894 ligand binding site [chemical binding]; other site 1138308001895 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1138308001896 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1138308001897 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1138308001898 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1138308001899 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1138308001900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1138308001901 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1138308001902 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1138308001903 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1138308001904 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1138308001905 ornithine decarboxylase; Provisional; Region: PRK13578 1138308001906 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1138308001907 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1138308001908 homodimer interface [polypeptide binding]; other site 1138308001909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308001910 catalytic residue [active] 1138308001911 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1138308001912 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1138308001913 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 1138308001914 active site 1138308001915 phosphorylation site [posttranslational modification] 1138308001916 intermolecular recognition site; other site 1138308001917 dimerization interface [polypeptide binding]; other site 1138308001918 Transcriptional regulator; Region: CitT; pfam12431 1138308001919 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1138308001920 PAS domain; Region: PAS; smart00091 1138308001921 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 1138308001922 ATP binding site [chemical binding]; other site 1138308001923 Mg2+ binding site [ion binding]; other site 1138308001924 G-X-G motif; other site 1138308001925 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1138308001926 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 1138308001927 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1138308001928 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 1138308001929 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 1138308001930 putative active site [active] 1138308001931 (T/H)XGH motif; other site 1138308001932 citrate lyase subunit gamma; Provisional; Region: PRK13253 1138308001933 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1138308001934 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1138308001935 Coenzyme A transferase; Region: CoA_trans; cl17247 1138308001936 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 1138308001937 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1138308001938 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1138308001939 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1138308001940 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 1138308001941 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1138308001942 catalytic residue [active] 1138308001943 oxidative damage protection protein; Provisional; Region: PRK05408 1138308001944 adenine DNA glycosylase; Provisional; Region: PRK10880 1138308001945 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1138308001946 minor groove reading motif; other site 1138308001947 helix-hairpin-helix signature motif; other site 1138308001948 substrate binding pocket [chemical binding]; other site 1138308001949 active site 1138308001950 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1138308001951 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 1138308001952 DNA binding and oxoG recognition site [nucleotide binding] 1138308001953 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1138308001954 hypothetical protein; Provisional; Region: PRK11702 1138308001955 hypothetical protein; Provisional; Region: PRK10626 1138308001956 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1138308001957 YcfA-like protein; Region: YcfA; pfam07927 1138308001958 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 1138308001959 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 1138308001960 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 1138308001961 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1138308001962 Uncharacterized small protein [Function unknown]; Region: COG2879 1138308001963 carbon starvation protein A; Provisional; Region: PRK15015 1138308001964 Carbon starvation protein CstA; Region: CstA; pfam02554 1138308001965 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1138308001966 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1138308001967 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 1138308001968 dimerization interface [polypeptide binding]; other site 1138308001969 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308001970 dimer interface [polypeptide binding]; other site 1138308001971 putative CheW interface [polypeptide binding]; other site 1138308001972 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1138308001973 active site lid residues [active] 1138308001974 substrate binding pocket [chemical binding]; other site 1138308001975 catalytic residues [active] 1138308001976 substrate-Mg2+ binding site; other site 1138308001977 aspartate-rich region 1; other site 1138308001978 aspartate-rich region 2; other site 1138308001979 phytoene desaturase; Region: crtI_fam; TIGR02734 1138308001980 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1138308001981 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 1138308001982 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1138308001983 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1138308001984 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 1138308001985 active site 1138308001986 TDP-binding site; other site 1138308001987 acceptor substrate-binding pocket; other site 1138308001988 homodimer interface [polypeptide binding]; other site 1138308001989 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1138308001990 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1138308001991 homotetramer interface [polypeptide binding]; other site 1138308001992 FMN binding site [chemical binding]; other site 1138308001993 homodimer contacts [polypeptide binding]; other site 1138308001994 putative active site [active] 1138308001995 putative substrate binding site [chemical binding]; other site 1138308001996 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1138308001997 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1138308001998 substrate binding pocket [chemical binding]; other site 1138308001999 chain length determination region; other site 1138308002000 substrate-Mg2+ binding site; other site 1138308002001 catalytic residues [active] 1138308002002 aspartate-rich region 1; other site 1138308002003 active site lid residues [active] 1138308002004 aspartate-rich region 2; other site 1138308002005 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 1138308002006 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 1138308002007 active site 1138308002008 SUMO-1 interface [polypeptide binding]; other site 1138308002009 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1138308002010 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1138308002011 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1138308002012 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1138308002013 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1138308002014 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1138308002015 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 1138308002016 DNA binding residues [nucleotide binding] 1138308002017 DNA primase; Validated; Region: dnaG; PRK05667 1138308002018 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1138308002019 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1138308002020 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 1138308002021 active site 1138308002022 metal binding site [ion binding]; metal-binding site 1138308002023 interdomain interaction site; other site 1138308002024 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1138308002025 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1138308002026 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1138308002027 UGMP family protein; Validated; Region: PRK09604 1138308002028 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1138308002029 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1138308002030 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1138308002031 homooctamer interface [polypeptide binding]; other site 1138308002032 active site 1138308002033 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1138308002034 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1138308002035 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1138308002036 active site 1138308002037 NTP binding site [chemical binding]; other site 1138308002038 metal binding triad [ion binding]; metal-binding site 1138308002039 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1138308002040 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1138308002041 Zn2+ binding site [ion binding]; other site 1138308002042 Mg2+ binding site [ion binding]; other site 1138308002043 SH3 domain-containing protein; Provisional; Region: PRK10884 1138308002044 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1138308002045 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1138308002046 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1138308002047 putative active site [active] 1138308002048 putative metal binding residues [ion binding]; other site 1138308002049 signature motif; other site 1138308002050 putative triphosphate binding site [ion binding]; other site 1138308002051 CHAD domain; Region: CHAD; pfam05235 1138308002052 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1138308002053 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1138308002054 metal binding triad; other site 1138308002055 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1138308002056 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1138308002057 metal binding triad; other site 1138308002058 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1138308002059 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1138308002060 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 1138308002061 putative ribose interaction site [chemical binding]; other site 1138308002062 putative ADP binding site [chemical binding]; other site 1138308002063 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1138308002064 active site 1138308002065 nucleotide binding site [chemical binding]; other site 1138308002066 HIGH motif; other site 1138308002067 KMSKS motif; other site 1138308002068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1138308002069 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1138308002070 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1138308002071 zinc transporter ZupT; Provisional; Region: PRK04201 1138308002072 ZIP Zinc transporter; Region: Zip; pfam02535 1138308002073 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 1138308002074 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1138308002075 putative active site [active] 1138308002076 metal binding site [ion binding]; metal-binding site 1138308002077 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1138308002078 hypothetical protein; Provisional; Region: PRK11653 1138308002079 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1138308002080 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1138308002081 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 1138308002082 dimer interface [polypeptide binding]; other site 1138308002083 ADP-ribose binding site [chemical binding]; other site 1138308002084 active site 1138308002085 nudix motif; other site 1138308002086 metal binding site [ion binding]; metal-binding site 1138308002087 putative dehydrogenase; Provisional; Region: PRK11039 1138308002088 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1138308002089 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1138308002090 active site 1138308002091 metal binding site [ion binding]; metal-binding site 1138308002092 hexamer interface [polypeptide binding]; other site 1138308002093 esterase YqiA; Provisional; Region: PRK11071 1138308002094 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1138308002095 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1138308002096 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 1138308002097 ATP binding site [chemical binding]; other site 1138308002098 Mg2+ binding site [ion binding]; other site 1138308002099 G-X-G motif; other site 1138308002100 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 1138308002101 anchoring element; other site 1138308002102 dimer interface [polypeptide binding]; other site 1138308002103 ATP binding site [chemical binding]; other site 1138308002104 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 1138308002105 active site 1138308002106 metal binding site [ion binding]; metal-binding site 1138308002107 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1138308002108 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1138308002109 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1138308002110 heme binding site [chemical binding]; other site 1138308002111 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1138308002112 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1138308002113 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1138308002114 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1138308002115 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 1138308002116 CAP-like domain; other site 1138308002117 active site 1138308002118 primary dimer interface [polypeptide binding]; other site 1138308002119 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1138308002120 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1138308002121 putative acyl-acceptor binding pocket; other site 1138308002122 FtsI repressor; Provisional; Region: PRK10883 1138308002123 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1138308002124 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1138308002125 putative oxygen-independent coproporphyrinogen III oxidase; Region: hemN_rel; TIGR00539 1138308002126 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 1138308002127 FeS/SAM binding site; other site 1138308002128 HemN C-terminal domain; Region: HemN_C; pfam06969 1138308002129 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 1138308002130 active site 1138308002131 dimerization interface [polypeptide binding]; other site 1138308002132 hypothetical protein; Validated; Region: PRK05090 1138308002133 YGGT family; Region: YGGT; pfam02325 1138308002134 Predicted integral membrane protein [Function unknown]; Region: COG0762 1138308002135 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1138308002136 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1138308002137 catalytic residue [active] 1138308002138 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1138308002139 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 1138308002140 Walker A motif; other site 1138308002141 ATP binding site [chemical binding]; other site 1138308002142 Walker B motif; other site 1138308002143 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 1138308002144 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1138308002145 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1138308002146 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1138308002147 hypothetical protein; Validated; Region: PRK00228 1138308002148 glutathione synthetase; Provisional; Region: PRK05246 1138308002149 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1138308002150 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1138308002151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1138308002152 RNA methyltransferase, RsmE family; Region: TIGR00046 1138308002153 DNA-specific endonuclease I; Provisional; Region: PRK15137 1138308002154 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1138308002155 hypothetical protein; Provisional; Region: PRK04860 1138308002156 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1138308002157 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1138308002158 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 1138308002159 putative substrate translocation pore; other site 1138308002160 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 1138308002161 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1138308002162 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1138308002163 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1138308002164 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1138308002165 Protein of unknown function (DUF2684); Region: DUF2684; pfam10885 1138308002166 Virulence promoting factor; Region: YqgB; pfam11036 1138308002167 arginine decarboxylase; Provisional; Region: PRK05354 1138308002168 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1138308002169 dimer interface [polypeptide binding]; other site 1138308002170 active site 1138308002171 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1138308002172 catalytic residues [active] 1138308002173 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1138308002174 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1138308002175 agmatinase; Region: agmatinase; TIGR01230 1138308002176 oligomer interface [polypeptide binding]; other site 1138308002177 putative active site [active] 1138308002178 Mn binding site [ion binding]; other site 1138308002179 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1138308002180 transketolase; Reviewed; Region: PRK12753 1138308002181 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 1138308002182 TPP-binding site [chemical binding]; other site 1138308002183 dimer interface [polypeptide binding]; other site 1138308002184 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 1138308002185 PYR/PP interface [polypeptide binding]; other site 1138308002186 dimer interface [polypeptide binding]; other site 1138308002187 TPP binding site [chemical binding]; other site 1138308002188 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1138308002189 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1138308002190 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1138308002191 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1138308002192 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1138308002193 Phosphoglycerate kinase; Region: PGK; pfam00162 1138308002194 substrate binding site [chemical binding]; other site 1138308002195 hinge regions; other site 1138308002196 ADP binding site [chemical binding]; other site 1138308002197 catalytic site [active] 1138308002198 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1138308002199 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 1138308002200 active site 1138308002201 intersubunit interface [polypeptide binding]; other site 1138308002202 zinc binding site [ion binding]; other site 1138308002203 Na+ binding site [ion binding]; other site 1138308002204 mechanosensitive channel MscS; Provisional; Region: PRK10334 1138308002205 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1138308002206 arginine exporter protein; Provisional; Region: PRK09304 1138308002207 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1138308002208 oxidative stress defense protein; Provisional; Region: PRK11087 1138308002209 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1138308002210 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308002211 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 1138308002212 putative dimerization interface [polypeptide binding]; other site 1138308002213 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 1138308002214 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1138308002215 active site 1138308002216 dimer interface [polypeptide binding]; other site 1138308002217 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1138308002218 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1138308002219 ligand binding site [chemical binding]; other site 1138308002220 NAD binding site [chemical binding]; other site 1138308002221 tetramer interface [polypeptide binding]; other site 1138308002222 catalytic site [active] 1138308002223 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1138308002224 L-serine binding site [chemical binding]; other site 1138308002225 ACT domain interface; other site 1138308002226 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1138308002227 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 1138308002228 Z-ring-associated protein; Provisional; Region: PRK10972 1138308002229 hypothetical protein; Reviewed; Region: PRK01736 1138308002230 proline aminopeptidase P II; Provisional; Region: PRK10879 1138308002231 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1138308002232 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 1138308002233 active site 1138308002234 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1138308002235 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1138308002236 oxidoreductase; Provisional; Region: PRK08013 1138308002237 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1138308002238 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1138308002239 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1138308002240 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 1138308002241 lipoyl attachment site [posttranslational modification]; other site 1138308002242 glycine dehydrogenase; Provisional; Region: PRK05367 1138308002243 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 1138308002244 tetramer interface [polypeptide binding]; other site 1138308002245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308002246 catalytic residue [active] 1138308002247 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 1138308002248 tetramer interface [polypeptide binding]; other site 1138308002249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308002250 catalytic residue [active] 1138308002251 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 1138308002252 classical (c) SDRs; Region: SDR_c; cd05233 1138308002253 NAD(P) binding site [chemical binding]; other site 1138308002254 active site 1138308002255 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 1138308002256 beta-galactosidase; Region: BGL; TIGR03356 1138308002257 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1138308002258 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1138308002259 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 1138308002260 putative active site [active] 1138308002261 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 1138308002262 hemolysin; Provisional; Region: PRK15087 1138308002263 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1138308002264 putative global regulator; Reviewed; Region: PRK09559 1138308002265 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1138308002266 hypothetical protein; Provisional; Region: PRK10878 1138308002267 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 1138308002268 flavodoxin FldB; Provisional; Region: PRK12359 1138308002269 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1138308002270 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1138308002271 active site 1138308002272 Int/Topo IB signature motif; other site 1138308002273 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1138308002274 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 1138308002275 dimerization domain [polypeptide binding]; other site 1138308002276 dimer interface [polypeptide binding]; other site 1138308002277 catalytic residues [active] 1138308002278 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1138308002279 DHH family; Region: DHH; pfam01368 1138308002280 DHHA1 domain; Region: DHHA1; pfam02272 1138308002281 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1138308002282 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1138308002283 RF-1 domain; Region: RF-1; pfam00472 1138308002284 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1138308002285 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 1138308002286 dimer interface [polypeptide binding]; other site 1138308002287 putative anticodon binding site; other site 1138308002288 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 1138308002289 motif 1; other site 1138308002290 active site 1138308002291 motif 2; other site 1138308002292 motif 3; other site 1138308002293 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1138308002294 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1138308002295 Peptidase family M23; Region: Peptidase_M23; pfam01551 1138308002296 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1138308002297 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 1138308002298 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 1138308002299 ligand binding site [chemical binding]; other site 1138308002300 flexible hinge region; other site 1138308002301 Transcriptional regulator; Region: Rrf2; cl17282 1138308002302 putative acyltransferase; Provisional; Region: PRK05790 1138308002303 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 1138308002304 dimer interface [polypeptide binding]; other site 1138308002305 active site 1138308002306 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 1138308002307 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1138308002308 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1138308002309 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 1138308002310 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1138308002311 NADP binding site [chemical binding]; other site 1138308002312 homodimer interface [polypeptide binding]; other site 1138308002313 active site 1138308002314 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1138308002315 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1138308002316 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1138308002317 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1138308002318 Walker A/P-loop; other site 1138308002319 ATP binding site [chemical binding]; other site 1138308002320 Q-loop/lid; other site 1138308002321 ABC transporter signature motif; other site 1138308002322 Walker B; other site 1138308002323 D-loop; other site 1138308002324 H-loop/switch region; other site 1138308002325 TOBE domain; Region: TOBE; pfam03459 1138308002326 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1138308002327 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 1138308002328 dimer interface [polypeptide binding]; other site 1138308002329 conserved gate region; other site 1138308002330 putative PBP binding loops; other site 1138308002331 ABC-ATPase subunit interface; other site 1138308002332 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 1138308002333 dimer interface [polypeptide binding]; other site 1138308002334 conserved gate region; other site 1138308002335 putative PBP binding loops; other site 1138308002336 ABC-ATPase subunit interface; other site 1138308002337 LPS O-antigen length regulator; Provisional; Region: PRK10381 1138308002338 Chain length determinant protein; Region: Wzz; pfam02706 1138308002339 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1138308002340 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1138308002341 putative racemase; Provisional; Region: PRK10200 1138308002342 aspartate racemase; Region: asp_race; TIGR00035 1138308002343 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1138308002344 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308002345 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 1138308002346 dimerization interface [polypeptide binding]; other site 1138308002347 diaminopimelate decarboxylase; Provisional; Region: PRK11165 1138308002348 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1138308002349 active site 1138308002350 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1138308002351 substrate binding site [chemical binding]; other site 1138308002352 catalytic residues [active] 1138308002353 dimer interface [polypeptide binding]; other site 1138308002354 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308002355 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308002356 DNA binding site [nucleotide binding] 1138308002357 domain linker motif; other site 1138308002358 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1138308002359 dimerization interface (closed form) [polypeptide binding]; other site 1138308002360 ligand binding site [chemical binding]; other site 1138308002361 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1138308002362 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1138308002363 beta-galactosidase; Region: BGL; TIGR03356 1138308002364 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1138308002365 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1138308002366 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1138308002367 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308002368 DNA-binding site [nucleotide binding]; DNA binding site 1138308002369 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1138308002370 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308002371 Coenzyme A binding pocket [chemical binding]; other site 1138308002372 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 1138308002373 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308002374 DNA binding site [nucleotide binding] 1138308002375 domain linker motif; other site 1138308002376 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1138308002377 dimerization interface (closed form) [polypeptide binding]; other site 1138308002378 ligand binding site [chemical binding]; other site 1138308002379 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 1138308002380 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1138308002381 putative acyl-acceptor binding pocket; other site 1138308002382 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1138308002383 acyl-activating enzyme (AAE) consensus motif; other site 1138308002384 putative AMP binding site [chemical binding]; other site 1138308002385 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1138308002386 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 1138308002387 putative substrate translocation pore; other site 1138308002388 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 1138308002389 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1138308002390 active site 1138308002391 catalytic tetrad [active] 1138308002392 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1138308002393 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 1138308002394 putative DNA-binding cleft [nucleotide binding]; other site 1138308002395 putative DNA clevage site; other site 1138308002396 molecular lever; other site 1138308002397 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 1138308002398 putative active site [active] 1138308002399 Ap4A binding site [chemical binding]; other site 1138308002400 nudix motif; other site 1138308002401 putative metal binding site [ion binding]; other site 1138308002402 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 1138308002403 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1138308002404 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1138308002405 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1138308002406 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1138308002407 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1138308002408 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1138308002409 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 1138308002410 dimerization interface [polypeptide binding]; other site 1138308002411 active site 1138308002412 hypothetical protein; Provisional; Region: PRK10506 1138308002413 hypothetical protein; Provisional; Region: PRK10557 1138308002414 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1138308002415 Protein of unknown function (DUF2509); Region: DUF2509; cl11672 1138308002416 hypothetical protein; Provisional; Region: PRK10332 1138308002417 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 1138308002418 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 1138308002419 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1138308002420 protease3; Provisional; Region: PRK15101 1138308002421 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1138308002422 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1138308002423 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1138308002424 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1138308002425 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1138308002426 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1138308002427 AAA domain; Region: AAA_30; pfam13604 1138308002428 Family description; Region: UvrD_C_2; pfam13538 1138308002429 N-acetylglutamate synthase; Validated; Region: PRK05279 1138308002430 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1138308002431 putative feedback inhibition sensing region; other site 1138308002432 putative nucleotide binding site [chemical binding]; other site 1138308002433 putative substrate binding site [chemical binding]; other site 1138308002434 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308002435 Coenzyme A binding pocket [chemical binding]; other site 1138308002436 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1138308002437 AMIN domain; Region: AMIN; pfam11741 1138308002438 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 1138308002439 active site 1138308002440 metal binding site [ion binding]; metal-binding site 1138308002441 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1138308002442 MltA specific insert domain; Region: MltA; smart00925 1138308002443 3D domain; Region: 3D; pfam06725 1138308002444 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 1138308002445 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 1138308002446 putative ATP binding site [chemical binding]; other site 1138308002447 putative substrate interface [chemical binding]; other site 1138308002448 Fe-S metabolism associated domain; Region: SufE; cl00951 1138308002449 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1138308002450 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1138308002451 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1138308002452 catalytic residue [active] 1138308002453 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1138308002454 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1138308002455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308002456 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 1138308002457 dimerization interface [polypeptide binding]; other site 1138308002458 substrate binding pocket [chemical binding]; other site 1138308002459 hypothetical protein; Provisional; Region: PRK10873 1138308002460 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1138308002461 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1138308002462 flap endonuclease-like protein; Provisional; Region: PRK09482 1138308002463 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1138308002464 active site 1138308002465 metal binding site 1 [ion binding]; metal-binding site 1138308002466 putative 5' ssDNA interaction site; other site 1138308002467 metal binding site 3; metal-binding site 1138308002468 metal binding site 2 [ion binding]; metal-binding site 1138308002469 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1138308002470 putative DNA binding site [nucleotide binding]; other site 1138308002471 putative metal binding site [ion binding]; other site 1138308002472 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1138308002473 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1138308002474 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1138308002475 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1138308002476 serine transporter; Region: stp; TIGR00814 1138308002477 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1138308002478 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1138308002479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1138308002480 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1138308002481 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1138308002482 SecY interacting protein Syd; Provisional; Region: PRK04968 1138308002483 tRNA pseudouridine synthase C; Region: DUF446; cl01187 1138308002484 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1138308002485 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1138308002486 probable active site [active] 1138308002487 flavodoxin; Provisional; Region: PRK08105 1138308002488 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1138308002489 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 1138308002490 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 1138308002491 dimerization interface [polypeptide binding]; other site 1138308002492 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 1138308002493 dimer interface [polypeptide binding]; other site 1138308002494 phosphorylation site [posttranslational modification] 1138308002495 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 1138308002496 ATP binding site [chemical binding]; other site 1138308002497 Mg2+ binding site [ion binding]; other site 1138308002498 G-X-G motif; other site 1138308002499 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 1138308002500 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 1138308002501 active site 1138308002502 phosphorylation site [posttranslational modification] 1138308002503 intermolecular recognition site; other site 1138308002504 dimerization interface [polypeptide binding]; other site 1138308002505 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 1138308002506 putative binding surface; other site 1138308002507 active site 1138308002508 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1138308002509 TRAM domain; Region: TRAM; pfam01938 1138308002510 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 1138308002511 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 1138308002512 S-adenosylmethionine binding site [chemical binding]; other site 1138308002513 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1138308002514 HD domain; Region: HD_4; pfam13328 1138308002515 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1138308002516 synthetase active site [active] 1138308002517 NTP binding site [chemical binding]; other site 1138308002518 metal binding site [ion binding]; metal-binding site 1138308002519 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 1138308002520 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1138308002521 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1138308002522 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1138308002523 homodimer interface [polypeptide binding]; other site 1138308002524 metal binding site [ion binding]; metal-binding site 1138308002525 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1138308002526 homodimer interface [polypeptide binding]; other site 1138308002527 active site 1138308002528 putative chemical substrate binding site [chemical binding]; other site 1138308002529 metal binding site [ion binding]; metal-binding site 1138308002530 CTP synthetase; Validated; Region: pyrG; PRK05380 1138308002531 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 1138308002532 Catalytic site [active] 1138308002533 active site 1138308002534 UTP binding site [chemical binding]; other site 1138308002535 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1138308002536 active site 1138308002537 putative oxyanion hole; other site 1138308002538 catalytic triad [active] 1138308002539 enolase; Provisional; Region: eno; PRK00077 1138308002540 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 1138308002541 dimer interface [polypeptide binding]; other site 1138308002542 metal binding site [ion binding]; metal-binding site 1138308002543 substrate binding pocket [chemical binding]; other site 1138308002544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308002545 NAD(P) binding site [chemical binding]; other site 1138308002546 active site 1138308002547 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1138308002548 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1138308002549 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 1138308002550 putative active site [active] 1138308002551 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1138308002552 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1138308002553 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308002554 active site turn [active] 1138308002555 phosphorylation site [posttranslational modification] 1138308002556 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1138308002557 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1138308002558 putative active site cavity [active] 1138308002559 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1138308002560 Repair protein; Region: Repair_PSII; pfam04536 1138308002561 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1138308002562 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1138308002563 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1138308002564 active site 1138308002565 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 1138308002566 Flavodoxin; Region: Flavodoxin_1; pfam00258 1138308002567 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; cd06199 1138308002568 FAD binding pocket [chemical binding]; other site 1138308002569 FAD binding motif [chemical binding]; other site 1138308002570 catalytic residues [active] 1138308002571 NAD binding pocket [chemical binding]; other site 1138308002572 phosphate binding motif [ion binding]; other site 1138308002573 beta-alpha-beta structure motif; other site 1138308002574 sulfite reductase subunit beta; Provisional; Region: PRK13504 1138308002575 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1138308002576 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1138308002577 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1138308002578 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 1138308002579 Active Sites [active] 1138308002580 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 1138308002581 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1138308002582 metal binding site [ion binding]; metal-binding site 1138308002583 siroheme synthase; Provisional; Region: cysG; PRK10637 1138308002584 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1138308002585 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1138308002586 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1138308002587 active site 1138308002588 SAM binding site [chemical binding]; other site 1138308002589 homodimer interface [polypeptide binding]; other site 1138308002590 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1138308002591 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 1138308002592 Active Sites [active] 1138308002593 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1138308002594 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1138308002595 CysD dimerization site [polypeptide binding]; other site 1138308002596 G1 box; other site 1138308002597 putative GEF interaction site [polypeptide binding]; other site 1138308002598 GTP/Mg2+ binding site [chemical binding]; other site 1138308002599 Switch I region; other site 1138308002600 G2 box; other site 1138308002601 G3 box; other site 1138308002602 Switch II region; other site 1138308002603 G4 box; other site 1138308002604 G5 box; other site 1138308002605 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 1138308002606 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 1138308002607 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1138308002608 ligand-binding site [chemical binding]; other site 1138308002609 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 1138308002610 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1138308002611 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1138308002612 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1138308002613 substrate binding site; other site 1138308002614 dimer interface; other site 1138308002615 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 1138308002616 homotrimer interaction site [polypeptide binding]; other site 1138308002617 zinc binding site [ion binding]; other site 1138308002618 CDP-binding sites; other site 1138308002619 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1138308002620 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1138308002621 Permutation of conserved domain; other site 1138308002622 active site 1138308002623 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1138308002624 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 1138308002625 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1138308002626 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1138308002627 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 1138308002628 S-adenosylmethionine binding site [chemical binding]; other site 1138308002629 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1138308002630 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1138308002631 Peptidase family M23; Region: Peptidase_M23; pfam01551 1138308002632 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1138308002633 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1138308002634 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1138308002635 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1138308002636 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 1138308002637 DNA binding residues [nucleotide binding] 1138308002638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 1138308002639 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 1138308002640 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1138308002641 putative substrate translocation pore; other site 1138308002642 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308002643 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308002644 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 1138308002645 putative effector binding pocket; other site 1138308002646 dimerization interface [polypeptide binding]; other site 1138308002647 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1138308002648 MarR family; Region: MarR_2; cl17246 1138308002649 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1138308002650 Flavoprotein; Region: Flavoprotein; pfam02441 1138308002651 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1138308002652 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 1138308002653 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1138308002654 MutS domain I; Region: MutS_I; pfam01624 1138308002655 MutS domain II; Region: MutS_II; pfam05188 1138308002656 MutS domain III; Region: MutS_III; pfam05192 1138308002657 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1138308002658 Walker A/P-loop; other site 1138308002659 ATP binding site [chemical binding]; other site 1138308002660 Q-loop/lid; other site 1138308002661 ABC transporter signature motif; other site 1138308002662 Walker B; other site 1138308002663 D-loop; other site 1138308002664 H-loop/switch region; other site 1138308002665 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1138308002666 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1138308002667 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1138308002668 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1138308002669 dimer interface [polypeptide binding]; other site 1138308002670 ligand binding site [chemical binding]; other site 1138308002671 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1138308002672 dimerization interface [polypeptide binding]; other site 1138308002673 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308002674 dimer interface [polypeptide binding]; other site 1138308002675 putative CheW interface [polypeptide binding]; other site 1138308002676 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 1138308002677 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1138308002678 substrate binding pocket [chemical binding]; other site 1138308002679 membrane-bound complex binding site; other site 1138308002680 hinge residues; other site 1138308002681 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1138308002682 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 1138308002683 dimer interface [polypeptide binding]; other site 1138308002684 conserved gate region; other site 1138308002685 putative PBP binding loops; other site 1138308002686 ABC-ATPase subunit interface; other site 1138308002687 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1138308002688 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1138308002689 Walker A/P-loop; other site 1138308002690 ATP binding site [chemical binding]; other site 1138308002691 Q-loop/lid; other site 1138308002692 ABC transporter signature motif; other site 1138308002693 Walker B; other site 1138308002694 D-loop; other site 1138308002695 H-loop/switch region; other site 1138308002696 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1138308002697 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 1138308002698 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1138308002699 hypothetical protein; Validated; Region: PRK03661 1138308002700 recombinase A; Provisional; Region: recA; PRK09354 1138308002701 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 1138308002702 hexamer interface [polypeptide binding]; other site 1138308002703 Walker A motif; other site 1138308002704 ATP binding site [chemical binding]; other site 1138308002705 Walker B motif; other site 1138308002706 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1138308002707 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1138308002708 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 1138308002709 motif 1; other site 1138308002710 active site 1138308002711 motif 2; other site 1138308002712 motif 3; other site 1138308002713 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1138308002714 DHHA1 domain; Region: DHHA1; pfam02272 1138308002715 carbon storage regulator; Provisional; Region: PRK01712 1138308002716 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1138308002717 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 1138308002718 motif II; other site 1138308002719 Predicted membrane protein [Function unknown]; Region: COG1238 1138308002720 glutamate--cysteine ligase; Provisional; Region: PRK02107 1138308002721 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1138308002722 CHASE4 domain; Region: CHASE4; pfam05228 1138308002723 PAS domain S-box; Region: sensory_box; TIGR00229 1138308002724 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 1138308002725 putative active site [active] 1138308002726 heme pocket [chemical binding]; other site 1138308002727 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308002728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308002729 metal binding site [ion binding]; metal-binding site 1138308002730 active site 1138308002731 I-site; other site 1138308002732 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 1138308002733 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1138308002734 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 1138308002735 putative substrate translocation pore; other site 1138308002736 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 1138308002737 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1138308002738 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308002739 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308002740 transcriptional repressor MprA; Provisional; Region: PRK10870 1138308002741 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1138308002742 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1138308002743 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 1138308002744 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 1138308002745 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1138308002746 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1138308002747 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 1138308002748 dimer interface [polypeptide binding]; other site 1138308002749 conserved gate region; other site 1138308002750 putative PBP binding loops; other site 1138308002751 ABC-ATPase subunit interface; other site 1138308002752 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 1138308002753 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1138308002754 Walker A/P-loop; other site 1138308002755 ATP binding site [chemical binding]; other site 1138308002756 Q-loop/lid; other site 1138308002757 ABC transporter signature motif; other site 1138308002758 Walker B; other site 1138308002759 D-loop; other site 1138308002760 H-loop/switch region; other site 1138308002761 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1138308002762 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1138308002763 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1138308002764 dimer interface [polypeptide binding]; other site 1138308002765 putative radical transfer pathway; other site 1138308002766 diiron center [ion binding]; other site 1138308002767 tyrosyl radical; other site 1138308002768 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1138308002769 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1138308002770 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1138308002771 active site 1138308002772 dimer interface [polypeptide binding]; other site 1138308002773 catalytic residues [active] 1138308002774 effector binding site; other site 1138308002775 R2 peptide binding site; other site 1138308002776 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1138308002777 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 1138308002778 catalytic residues [active] 1138308002779 hypothetical protein; Provisional; Region: PRK10132 1138308002780 hypothetical protein; Provisional; Region: PRK10556 1138308002781 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 1138308002782 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 1138308002783 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1138308002784 FIST N domain; Region: FIST; smart00897 1138308002785 FIST C domain; Region: FIST_C; pfam10442 1138308002786 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308002787 dimer interface [polypeptide binding]; other site 1138308002788 putative CheW interface [polypeptide binding]; other site 1138308002789 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 1138308002790 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 1138308002791 active site 1138308002792 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1138308002793 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 1138308002794 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 1138308002795 Int/Topo IB signature motif; other site 1138308002796 MT-A70; Region: MT-A70; cl01947 1138308002797 AAA domain; Region: AAA_24; pfam13479 1138308002798 Host-nuclease inhibitor protein Gam; Region: Gam; pfam06064 1138308002799 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 1138308002800 transcriptional repressor DicA; Reviewed; Region: PRK09706 1138308002801 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 1138308002802 non-specific DNA binding site [nucleotide binding]; other site 1138308002803 salt bridge; other site 1138308002804 sequence-specific DNA binding site [nucleotide binding]; other site 1138308002805 Bacteriophage CII protein; Region: Phage_CII; pfam05269 1138308002806 Bacteriophage replication protein O; Region: Phage_rep_O; pfam04492 1138308002807 Replication protein P; Region: Phage_lambda_P; pfam06992 1138308002808 hypothetical protein; Provisional; Region: PRK09741 1138308002809 VIT family; Region: VIT1; pfam01988 1138308002810 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 1138308002811 Endodeoxyribonuclease RusA; Region: RusA; cl01885 1138308002812 Phage antitermination protein Q; Region: Phage_antiter_Q; pfam06323 1138308002813 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1138308002814 active site 1138308002815 ATP binding site [chemical binding]; other site 1138308002816 substrate binding site [chemical binding]; other site 1138308002817 activation loop (A-loop); other site 1138308002818 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1138308002819 active site 1138308002820 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1138308002821 catalytic residues [active] 1138308002822 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 1138308002823 Protein of unknown function (DUF2441); Region: DUF2441; pfam10386 1138308002824 Terminase small subunit; Region: Terminase_2; pfam03592 1138308002825 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 1138308002826 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1138308002827 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1138308002828 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 1138308002829 Phage tail protein; Region: Phage_tail_3; pfam08813 1138308002830 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1138308002831 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1138308002832 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 1138308002833 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 1138308002834 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1138308002835 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1138308002836 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1138308002837 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 1138308002838 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1138308002839 Phage minor tail protein L; Region: Phage_tail_L; cl01908 1138308002840 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1138308002841 MPN+ (JAMM) motif; other site 1138308002842 Zinc-binding site [ion binding]; other site 1138308002843 NlpC/P60 family; Region: NLPC_P60; pfam00877 1138308002844 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1138308002845 Phage-related protein, tail component [Function unknown]; Region: COG4723 1138308002846 Phage-related protein, tail component [Function unknown]; Region: COG4733 1138308002847 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1138308002848 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1138308002849 Fibronectin type III protein; Region: DUF3672; pfam12421 1138308002850 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1138308002851 potential frameshift: common BLAST hit: gi|386016486|ref|YP_005934773.1| large repetitive protein YeeJ 1138308002852 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308002853 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308002854 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308002855 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308002856 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308002857 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308002858 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308002859 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308002860 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308002861 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308002862 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308002863 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308002864 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308002865 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308002866 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308002867 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308002868 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308002869 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308002870 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308002871 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308002872 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1138308002873 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1138308002874 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1138308002875 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1138308002876 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1138308002877 Walker A/P-loop; other site 1138308002878 ATP binding site [chemical binding]; other site 1138308002879 Q-loop/lid; other site 1138308002880 ABC transporter signature motif; other site 1138308002881 Walker B; other site 1138308002882 D-loop; other site 1138308002883 H-loop/switch region; other site 1138308002884 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1138308002885 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308002886 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308002887 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 1138308002888 SmpB-tmRNA interface; other site 1138308002889 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1138308002890 putative coenzyme Q binding site [chemical binding]; other site 1138308002891 hypothetical protein; Validated; Region: PRK01777 1138308002892 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 1138308002893 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1138308002894 recombination and repair protein; Provisional; Region: PRK10869 1138308002895 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1138308002896 Walker A/P-loop; other site 1138308002897 ATP binding site [chemical binding]; other site 1138308002898 Q-loop/lid; other site 1138308002899 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1138308002900 Q-loop/lid; other site 1138308002901 ABC transporter signature motif; other site 1138308002902 Walker B; other site 1138308002903 D-loop; other site 1138308002904 H-loop/switch region; other site 1138308002905 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 1138308002906 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1138308002907 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1138308002908 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 1138308002909 dimer interface [polypeptide binding]; other site 1138308002910 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1138308002911 hypothetical protein; Provisional; Region: PRK11573 1138308002912 Domain of unknown function DUF21; Region: DUF21; pfam01595 1138308002913 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 1138308002914 Transporter associated domain; Region: CorC_HlyC; smart01091 1138308002915 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1138308002916 signal recognition particle protein; Provisional; Region: PRK10867 1138308002917 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1138308002918 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 1138308002919 P loop; other site 1138308002920 GTP binding site [chemical binding]; other site 1138308002921 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1138308002922 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1138308002923 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1138308002924 RimM N-terminal domain; Region: RimM; pfam01782 1138308002925 PRC-barrel domain; Region: PRC; pfam05239 1138308002926 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1138308002927 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1138308002928 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1138308002929 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1138308002930 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1138308002931 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1138308002932 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1138308002933 Chorismate mutase type II; Region: CM_2; cl00693 1138308002934 prephenate dehydrogenase; Validated; Region: PRK08507 1138308002935 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1138308002936 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1138308002937 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1138308002938 Prephenate dehydratase; Region: PDT; pfam00800 1138308002939 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 1138308002940 putative L-Phe binding site [chemical binding]; other site 1138308002941 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 1138308002942 30S subunit binding site; other site 1138308002943 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1138308002944 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 1138308002945 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1138308002946 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 1138308002947 RNA binding surface [nucleotide binding]; other site 1138308002948 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1138308002949 active site 1138308002950 hypothetical protein; Provisional; Region: PRK10723 1138308002951 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1138308002952 protein disaggregation chaperone; Provisional; Region: PRK10865 1138308002953 Clp amino terminal domain; Region: Clp_N; pfam02861 1138308002954 Clp amino terminal domain; Region: Clp_N; pfam02861 1138308002955 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 1138308002956 Walker A motif; other site 1138308002957 ATP binding site [chemical binding]; other site 1138308002958 Walker B motif; other site 1138308002959 arginine finger; other site 1138308002960 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 1138308002961 Walker A motif; other site 1138308002962 ATP binding site [chemical binding]; other site 1138308002963 Walker B motif; other site 1138308002964 arginine finger; other site 1138308002965 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1138308002966 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 1138308002967 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1138308002968 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 1138308002969 non-specific DNA binding site [nucleotide binding]; other site 1138308002970 salt bridge; other site 1138308002971 sequence-specific DNA binding site [nucleotide binding]; other site 1138308002972 2TM domain; Region: 2TM; pfam13239 1138308002973 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1138308002974 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1138308002975 PYR/PP interface [polypeptide binding]; other site 1138308002976 dimer interface [polypeptide binding]; other site 1138308002977 tetramer interface [polypeptide binding]; other site 1138308002978 TPP binding site [chemical binding]; other site 1138308002979 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1138308002980 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 1138308002981 TPP-binding site [chemical binding]; other site 1138308002982 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 1138308002983 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1138308002984 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 1138308002985 putative substrate translocation pore; other site 1138308002986 lipoprotein; Provisional; Region: PRK10759 1138308002987 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1138308002988 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1138308002989 domain interface [polypeptide binding]; other site 1138308002990 putative active site [active] 1138308002991 catalytic site [active] 1138308002992 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1138308002993 domain interface [polypeptide binding]; other site 1138308002994 putative active site [active] 1138308002995 catalytic site [active] 1138308002996 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1138308002997 CoA binding domain; Region: CoA_binding_2; pfam13380 1138308002998 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1138308002999 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1138308003000 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1138308003001 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1138308003002 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1138308003003 thioredoxin 2; Provisional; Region: PRK10996 1138308003004 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 1138308003005 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 1138308003006 catalytic residues [active] 1138308003007 putative methyltransferase; Provisional; Region: PRK10864 1138308003008 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1138308003009 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1138308003010 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1138308003011 ligand binding site [chemical binding]; other site 1138308003012 active site 1138308003013 UGI interface [polypeptide binding]; other site 1138308003014 catalytic site [active] 1138308003015 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1138308003016 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1138308003017 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 1138308003018 ATP binding site [chemical binding]; other site 1138308003019 Mg++ binding site [ion binding]; other site 1138308003020 motif III; other site 1138308003021 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 1138308003022 nucleotide binding region [chemical binding]; other site 1138308003023 ATP-binding site [chemical binding]; other site 1138308003024 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1138308003025 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 1138308003026 S-adenosylmethionine binding site [chemical binding]; other site 1138308003027 L-aspartate oxidase; Provisional; Region: PRK09077 1138308003028 L-aspartate oxidase; Provisional; Region: PRK06175 1138308003029 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1138308003030 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1138308003031 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1138308003032 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 1138308003033 DNA binding residues [nucleotide binding] 1138308003034 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 1138308003035 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1138308003036 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1138308003037 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1138308003038 MucB/RseB family; Region: MucB_RseB; pfam03888 1138308003039 SoxR reducing system protein RseC; Provisional; Region: PRK10862 1138308003040 GTP-binding protein LepA; Provisional; Region: PRK05433 1138308003041 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1138308003042 G1 box; other site 1138308003043 putative GEF interaction site [polypeptide binding]; other site 1138308003044 GTP/Mg2+ binding site [chemical binding]; other site 1138308003045 Switch I region; other site 1138308003046 G2 box; other site 1138308003047 G3 box; other site 1138308003048 Switch II region; other site 1138308003049 G4 box; other site 1138308003050 G5 box; other site 1138308003051 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 1138308003052 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 1138308003053 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1138308003054 signal peptidase I; Provisional; Region: PRK10861 1138308003055 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 1138308003056 Catalytic site [active] 1138308003057 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 1138308003058 ribonuclease III; Reviewed; Region: rnc; PRK00102 1138308003059 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 1138308003060 dimerization interface [polypeptide binding]; other site 1138308003061 active site 1138308003062 metal binding site [ion binding]; metal-binding site 1138308003063 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 1138308003064 dsRNA binding site [nucleotide binding]; other site 1138308003065 GTPase Era; Reviewed; Region: era; PRK00089 1138308003066 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1138308003067 G1 box; other site 1138308003068 GTP/Mg2+ binding site [chemical binding]; other site 1138308003069 Switch I region; other site 1138308003070 G2 box; other site 1138308003071 Switch II region; other site 1138308003072 G3 box; other site 1138308003073 G4 box; other site 1138308003074 G5 box; other site 1138308003075 KH domain; Region: KH_2; pfam07650 1138308003076 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1138308003077 Recombination protein O N terminal; Region: RecO_N; pfam11967 1138308003078 Recombination protein O C terminal; Region: RecO_C; pfam02565 1138308003079 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 1138308003080 active site 1138308003081 hydrophilic channel; other site 1138308003082 dimerization interface [polypeptide binding]; other site 1138308003083 catalytic residues [active] 1138308003084 active site lid [active] 1138308003085 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1138308003086 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1138308003087 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 1138308003088 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 1138308003089 putative active site [active] 1138308003090 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1138308003091 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1138308003092 putative active site [active] 1138308003093 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 1138308003094 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308003095 active site turn [active] 1138308003096 phosphorylation site [posttranslational modification] 1138308003097 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1138308003098 hypothetical protein; Provisional; Region: PRK11590 1138308003099 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1138308003100 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1138308003101 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 1138308003102 substrate binding pocket [chemical binding]; other site 1138308003103 membrane-bound complex binding site; other site 1138308003104 hinge residues; other site 1138308003105 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 1138308003106 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1138308003107 catalytic residue [active] 1138308003108 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1138308003109 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 1138308003110 dimerization interface [polypeptide binding]; other site 1138308003111 ATP binding site [chemical binding]; other site 1138308003112 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1138308003113 dimerization interface [polypeptide binding]; other site 1138308003114 ATP binding site [chemical binding]; other site 1138308003115 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1138308003116 putative active site [active] 1138308003117 catalytic triad [active] 1138308003118 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1138308003119 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 1138308003120 dimer interface [polypeptide binding]; other site 1138308003121 phosphorylation site [posttranslational modification] 1138308003122 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 1138308003123 ATP binding site [chemical binding]; other site 1138308003124 Mg2+ binding site [ion binding]; other site 1138308003125 G-X-G motif; other site 1138308003126 hypothetical protein; Provisional; Region: PRK10722 1138308003127 response regulator GlrR; Provisional; Region: PRK15115 1138308003128 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 1138308003129 active site 1138308003130 phosphorylation site [posttranslational modification] 1138308003131 intermolecular recognition site; other site 1138308003132 dimerization interface [polypeptide binding]; other site 1138308003133 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 1138308003134 Walker A motif; other site 1138308003135 ATP binding site [chemical binding]; other site 1138308003136 Walker B motif; other site 1138308003137 arginine finger; other site 1138308003138 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1138308003139 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1138308003140 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1138308003141 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 1138308003142 heme-binding site [chemical binding]; other site 1138308003143 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 1138308003144 FAD binding pocket [chemical binding]; other site 1138308003145 FAD binding motif [chemical binding]; other site 1138308003146 phosphate binding motif [ion binding]; other site 1138308003147 beta-alpha-beta structure motif; other site 1138308003148 NAD binding pocket [chemical binding]; other site 1138308003149 Heme binding pocket [chemical binding]; other site 1138308003150 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1138308003151 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 1138308003152 dimer interface [polypeptide binding]; other site 1138308003153 active site 1138308003154 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1138308003155 folate binding site [chemical binding]; other site 1138308003156 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1138308003157 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1138308003158 DNA binding residues [nucleotide binding] 1138308003159 putative dimer interface [polypeptide binding]; other site 1138308003160 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1138308003161 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1138308003162 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 1138308003163 putative substrate translocation pore; other site 1138308003164 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 1138308003165 Protein of unknown function (DUF2996); Region: DUF2996; pfam11210 1138308003166 PRD domain; Region: PRD; pfam00874 1138308003167 PRD domain; Region: PRD; pfam00874 1138308003168 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 1138308003169 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1138308003170 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1138308003171 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 1138308003172 active site 1138308003173 dimerization interface [polypeptide binding]; other site 1138308003174 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1138308003175 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1138308003176 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 1138308003177 Rrf2 family protein; Region: rrf2_super; TIGR00738 1138308003178 cysteine desulfurase; Provisional; Region: PRK14012 1138308003179 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1138308003180 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1138308003181 catalytic residue [active] 1138308003182 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1138308003183 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1138308003184 trimerization site [polypeptide binding]; other site 1138308003185 active site 1138308003186 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1138308003187 co-chaperone HscB; Provisional; Region: hscB; PRK05014 1138308003188 DnaJ domain; Region: DnaJ; pfam00226 1138308003189 HSP70 interaction site [polypeptide binding]; other site 1138308003190 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1138308003191 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1138308003192 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1138308003193 nucleotide binding site [chemical binding]; other site 1138308003194 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1138308003195 SBD interface [polypeptide binding]; other site 1138308003196 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1138308003197 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 1138308003198 catalytic loop [active] 1138308003199 iron binding site [ion binding]; other site 1138308003200 hypothetical protein; Provisional; Region: PRK10721 1138308003201 aminopeptidase B; Provisional; Region: PRK05015 1138308003202 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 1138308003203 interface (dimer of trimers) [polypeptide binding]; other site 1138308003204 Substrate-binding/catalytic site; other site 1138308003205 Zn-binding sites [ion binding]; other site 1138308003206 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 1138308003207 Peptidase family M48; Region: Peptidase_M48; cl12018 1138308003208 Peptidase family M48; Region: Peptidase_M48; cl12018 1138308003209 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1138308003210 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1138308003211 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1138308003212 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 1138308003213 putative active site [active] 1138308003214 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 1138308003215 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 1138308003216 active site residue [active] 1138308003217 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 1138308003218 active site residue [active] 1138308003219 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1138308003220 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 1138308003221 NAD binding site [chemical binding]; other site 1138308003222 sugar binding site [chemical binding]; other site 1138308003223 divalent metal binding site [ion binding]; other site 1138308003224 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1138308003225 dimer interface [polypeptide binding]; other site 1138308003226 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1138308003227 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1138308003228 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308003229 active site turn [active] 1138308003230 phosphorylation site [posttranslational modification] 1138308003231 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1138308003232 MG2 domain; Region: A2M_N; pfam01835 1138308003233 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 1138308003234 surface patch; other site 1138308003235 thioester region; other site 1138308003236 penicillin-binding protein 1C; Provisional; Region: PRK11240 1138308003237 Transglycosylase; Region: Transgly; pfam00912 1138308003238 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1138308003239 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1138308003240 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 1138308003241 active site 1138308003242 multimer interface [polypeptide binding]; other site 1138308003243 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1138308003244 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 1138308003245 FeS/SAM binding site; other site 1138308003246 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1138308003247 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 1138308003248 non-specific DNA binding site [nucleotide binding]; other site 1138308003249 salt bridge; other site 1138308003250 sequence-specific DNA binding site [nucleotide binding]; other site 1138308003251 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1138308003252 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1138308003253 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1138308003254 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1138308003255 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1138308003256 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 1138308003257 dimer interface [polypeptide binding]; other site 1138308003258 motif 1; other site 1138308003259 active site 1138308003260 motif 2; other site 1138308003261 motif 3; other site 1138308003262 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 1138308003263 anticodon binding site; other site 1138308003264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1138308003265 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 1138308003266 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1138308003267 Trp docking motif [polypeptide binding]; other site 1138308003268 GTP-binding protein Der; Reviewed; Region: PRK00093 1138308003269 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1138308003270 G1 box; other site 1138308003271 GTP/Mg2+ binding site [chemical binding]; other site 1138308003272 Switch I region; other site 1138308003273 G2 box; other site 1138308003274 Switch II region; other site 1138308003275 G3 box; other site 1138308003276 G4 box; other site 1138308003277 G5 box; other site 1138308003278 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1138308003279 G1 box; other site 1138308003280 GTP/Mg2+ binding site [chemical binding]; other site 1138308003281 Switch I region; other site 1138308003282 G2 box; other site 1138308003283 G3 box; other site 1138308003284 Switch II region; other site 1138308003285 G4 box; other site 1138308003286 G5 box; other site 1138308003287 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 1138308003288 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1138308003289 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1138308003290 active site 1138308003291 Zn binding site [ion binding]; other site 1138308003292 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1138308003293 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 1138308003294 generic binding surface II; other site 1138308003295 generic binding surface I; other site 1138308003296 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1138308003297 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 1138308003298 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 1138308003299 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 1138308003300 active site 1138308003301 GMP synthase; Reviewed; Region: guaA; PRK00074 1138308003302 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1138308003303 AMP/PPi binding site [chemical binding]; other site 1138308003304 candidate oxyanion hole; other site 1138308003305 catalytic triad [active] 1138308003306 potential glutamine specificity residues [chemical binding]; other site 1138308003307 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 1138308003308 ATP Binding subdomain [chemical binding]; other site 1138308003309 Ligand Binding sites [chemical binding]; other site 1138308003310 Dimerization subdomain; other site 1138308003311 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 1138308003312 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1138308003313 Transposase; Region: HTH_Tnp_1; cl17663 1138308003314 MASE1; Region: MASE1; pfam05231 1138308003315 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308003316 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1138308003317 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 1138308003318 exopolyphosphatase; Provisional; Region: PRK10854 1138308003319 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1138308003320 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 1138308003321 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1138308003322 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1138308003323 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1138308003324 putative active site [active] 1138308003325 catalytic site [active] 1138308003326 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 1138308003327 domain interface [polypeptide binding]; other site 1138308003328 active site 1138308003329 catalytic site [active] 1138308003330 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1138308003331 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1138308003332 active site 1138308003333 substrate binding site [chemical binding]; other site 1138308003334 cosubstrate binding site; other site 1138308003335 catalytic site [active] 1138308003336 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1138308003337 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 1138308003338 dimerization interface [polypeptide binding]; other site 1138308003339 putative ATP binding site [chemical binding]; other site 1138308003340 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1138308003341 active site 1138308003342 uracil transporter; Provisional; Region: PRK10720 1138308003343 DNA replication initiation factor; Provisional; Region: PRK08084 1138308003344 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1138308003345 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 1138308003346 ArsC family; Region: ArsC; pfam03960 1138308003347 catalytic residues [active] 1138308003348 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1138308003349 Peptidase family M48; Region: Peptidase_M48; cl12018 1138308003350 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1138308003351 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1138308003352 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1138308003353 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 1138308003354 catalytic triad [active] 1138308003355 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 1138308003356 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1138308003357 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1138308003358 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1138308003359 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1138308003360 dimer interface [polypeptide binding]; other site 1138308003361 active site 1138308003362 catalytic residue [active] 1138308003363 lipoprotein; Provisional; Region: PRK11679 1138308003364 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1138308003365 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1138308003366 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1138308003367 ATP binding site [chemical binding]; other site 1138308003368 active site 1138308003369 substrate binding site [chemical binding]; other site 1138308003370 Predicted metalloprotease [General function prediction only]; Region: COG2321 1138308003371 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1138308003372 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1138308003373 Helicase; Region: Helicase_RecD; pfam05127 1138308003374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308003375 Coenzyme A binding pocket [chemical binding]; other site 1138308003376 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 1138308003377 putative hydrolase; Provisional; Region: PRK11460 1138308003378 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1138308003379 hypothetical protein; Provisional; Region: PRK13664 1138308003380 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1138308003381 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1138308003382 metal binding site [ion binding]; metal-binding site 1138308003383 dimer interface [polypeptide binding]; other site 1138308003384 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 1138308003385 ArsC family; Region: ArsC; pfam03960 1138308003386 putative catalytic residues [active] 1138308003387 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308003388 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1138308003389 Coenzyme A binding pocket [chemical binding]; other site 1138308003390 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 1138308003391 Protein export membrane protein; Region: SecD_SecF; cl14618 1138308003392 transcriptional regulator NarP; Provisional; Region: PRK10403 1138308003393 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 1138308003394 active site 1138308003395 phosphorylation site [posttranslational modification] 1138308003396 intermolecular recognition site; other site 1138308003397 dimerization interface [polypeptide binding]; other site 1138308003398 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 1138308003399 DNA binding residues [nucleotide binding] 1138308003400 dimerization interface [polypeptide binding]; other site 1138308003401 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1138308003402 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 1138308003403 dimer interface [polypeptide binding]; other site 1138308003404 ADP-ribose binding site [chemical binding]; other site 1138308003405 active site 1138308003406 nudix motif; other site 1138308003407 metal binding site [ion binding]; metal-binding site 1138308003408 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1138308003409 transketolase; Reviewed; Region: PRK12753 1138308003410 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 1138308003411 TPP-binding site [chemical binding]; other site 1138308003412 dimer interface [polypeptide binding]; other site 1138308003413 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 1138308003414 PYR/PP interface [polypeptide binding]; other site 1138308003415 dimer interface [polypeptide binding]; other site 1138308003416 TPP binding site [chemical binding]; other site 1138308003417 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1138308003418 transaldolase-like protein; Provisional; Region: PTZ00411 1138308003419 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1138308003420 active site 1138308003421 dimer interface [polypeptide binding]; other site 1138308003422 catalytic residue [active] 1138308003423 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1138308003424 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1138308003425 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1138308003426 putative NAD(P) binding site [chemical binding]; other site 1138308003427 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1138308003428 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 1138308003429 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1138308003430 Walker A/P-loop; other site 1138308003431 ATP binding site [chemical binding]; other site 1138308003432 Q-loop/lid; other site 1138308003433 ABC transporter signature motif; other site 1138308003434 Walker B; other site 1138308003435 D-loop; other site 1138308003436 H-loop/switch region; other site 1138308003437 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1138308003438 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 1138308003439 ABC-ATPase subunit interface; other site 1138308003440 dimer interface [polypeptide binding]; other site 1138308003441 putative PBP binding regions; other site 1138308003442 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 1138308003443 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1138308003444 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 1138308003445 ABC-ATPase subunit interface; other site 1138308003446 dimer interface [polypeptide binding]; other site 1138308003447 putative PBP binding regions; other site 1138308003448 enterobactin exporter EntS; Provisional; Region: PRK10489 1138308003449 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 1138308003450 putative substrate translocation pore; other site 1138308003451 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 1138308003452 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1138308003453 siderophore binding site; other site 1138308003454 isochorismate synthase EntC; Provisional; Region: PRK15016 1138308003455 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1138308003456 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 1138308003457 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1138308003458 acyl-activating enzyme (AAE) consensus motif; other site 1138308003459 active site 1138308003460 AMP binding site [chemical binding]; other site 1138308003461 substrate binding site [chemical binding]; other site 1138308003462 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 1138308003463 hydrophobic substrate binding pocket; other site 1138308003464 Isochorismatase family; Region: Isochorismatase; pfam00857 1138308003465 active site 1138308003466 conserved cis-peptide bond; other site 1138308003467 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1138308003468 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1138308003469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308003470 NAD(P) binding site [chemical binding]; other site 1138308003471 active site 1138308003472 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 1138308003473 CoenzymeA binding site [chemical binding]; other site 1138308003474 subunit interaction site [polypeptide binding]; other site 1138308003475 PHB binding site; other site 1138308003476 carbon starvation protein A; Provisional; Region: PRK15015 1138308003477 Carbon starvation protein CstA; Region: CstA; pfam02554 1138308003478 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1138308003479 Uncharacterized small protein [Function unknown]; Region: COG2879 1138308003480 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 1138308003481 salt bridge; other site 1138308003482 non-specific DNA binding site [nucleotide binding]; other site 1138308003483 sequence-specific DNA binding site [nucleotide binding]; other site 1138308003484 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1138308003485 enterobactin exporter EntS; Provisional; Region: PRK10489 1138308003486 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 1138308003487 putative substrate translocation pore; other site 1138308003488 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1138308003489 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 1138308003490 putative active site [active] 1138308003491 metal binding site [ion binding]; metal-binding site 1138308003492 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1138308003493 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1138308003494 Walker A/P-loop; other site 1138308003495 ATP binding site [chemical binding]; other site 1138308003496 Q-loop/lid; other site 1138308003497 ABC transporter signature motif; other site 1138308003498 Walker B; other site 1138308003499 D-loop; other site 1138308003500 H-loop/switch region; other site 1138308003501 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1138308003502 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1138308003503 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 1138308003504 TM-ABC transporter signature motif; other site 1138308003505 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 1138308003506 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1138308003507 putative ligand binding site [chemical binding]; other site 1138308003508 Uncharacterized conserved protein [Function unknown]; Region: COG5276 1138308003509 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 1138308003510 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1138308003511 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1138308003512 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1138308003513 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1138308003514 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 1138308003515 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 1138308003516 active site 1138308003517 metal binding site [ion binding]; metal-binding site 1138308003518 putative acetyltransferase; Provisional; Region: PRK03624 1138308003519 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308003520 Coenzyme A binding pocket [chemical binding]; other site 1138308003521 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 1138308003522 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 1138308003523 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 1138308003524 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 1138308003525 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1138308003526 thiosulfate transporter subunit; Provisional; Region: PRK10852 1138308003527 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1138308003528 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1138308003529 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 1138308003530 dimer interface [polypeptide binding]; other site 1138308003531 conserved gate region; other site 1138308003532 putative PBP binding loops; other site 1138308003533 ABC-ATPase subunit interface; other site 1138308003534 sulfate transport protein; Provisional; Region: cysT; CHL00187 1138308003535 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 1138308003536 dimer interface [polypeptide binding]; other site 1138308003537 conserved gate region; other site 1138308003538 putative PBP binding loops; other site 1138308003539 ABC-ATPase subunit interface; other site 1138308003540 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 1138308003541 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1138308003542 Walker A/P-loop; other site 1138308003543 ATP binding site [chemical binding]; other site 1138308003544 Q-loop/lid; other site 1138308003545 ABC transporter signature motif; other site 1138308003546 Walker B; other site 1138308003547 D-loop; other site 1138308003548 H-loop/switch region; other site 1138308003549 TOBE-like domain; Region: TOBE_3; pfam12857 1138308003550 cysteine synthase B; Region: cysM; TIGR01138 1138308003551 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 1138308003552 dimer interface [polypeptide binding]; other site 1138308003553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308003554 catalytic residue [active] 1138308003555 hypothetical protein; Provisional; Region: PRK10318 1138308003556 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 1138308003557 HPr interaction site; other site 1138308003558 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1138308003559 active site 1138308003560 phosphorylation site [posttranslational modification] 1138308003561 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1138308003562 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1138308003563 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1138308003564 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1138308003565 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 1138308003566 dimerization domain swap beta strand [polypeptide binding]; other site 1138308003567 regulatory protein interface [polypeptide binding]; other site 1138308003568 active site 1138308003569 regulatory phosphorylation site [posttranslational modification]; other site 1138308003570 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1138308003571 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 1138308003572 dimer interface [polypeptide binding]; other site 1138308003573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308003574 catalytic residue [active] 1138308003575 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1138308003576 cell division protein ZipA; Provisional; Region: PRK03427 1138308003577 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 1138308003578 FtsZ protein binding site [polypeptide binding]; other site 1138308003579 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1138308003580 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 1138308003581 nucleotide binding pocket [chemical binding]; other site 1138308003582 K-X-D-G motif; other site 1138308003583 catalytic site [active] 1138308003584 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1138308003585 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1138308003586 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 1138308003587 Dimer interface [polypeptide binding]; other site 1138308003588 BRCT sequence motif; other site 1138308003589 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1138308003590 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1138308003591 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1138308003592 active site 1138308003593 HIGH motif; other site 1138308003594 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1138308003595 active site 1138308003596 KMSKS motif; other site 1138308003597 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 1138308003598 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 1138308003599 MASE1; Region: MASE1; cl17823 1138308003600 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308003601 diguanylate cyclase; Region: GGDEF; smart00267 1138308003602 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 1138308003603 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1138308003604 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1138308003605 Nucleoside recognition; Region: Gate; pfam07670 1138308003606 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1138308003607 manganese transport protein MntH; Reviewed; Region: PRK00701 1138308003608 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1138308003609 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 1138308003610 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 1138308003611 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1138308003612 active site 1138308003613 catalytic tetrad [active] 1138308003614 indolepyruvate decarboxylase, Erwinia family; Region: indolpyr_decarb; TIGR03393 1138308003615 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 1138308003616 dimer interface [polypeptide binding]; other site 1138308003617 PYR/PP interface [polypeptide binding]; other site 1138308003618 TPP binding site [chemical binding]; other site 1138308003619 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1138308003620 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 1138308003621 TPP-binding site [chemical binding]; other site 1138308003622 dimer interface [polypeptide binding]; other site 1138308003623 glucokinase, proteobacterial type; Region: glk; TIGR00749 1138308003624 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1138308003625 nucleotide binding site [chemical binding]; other site 1138308003626 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1138308003627 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 1138308003628 active site 1138308003629 phosphorylation site [posttranslational modification] 1138308003630 intermolecular recognition site; other site 1138308003631 dimerization interface [polypeptide binding]; other site 1138308003632 LytTr DNA-binding domain; Region: LytTR; pfam04397 1138308003633 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1138308003634 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1138308003635 GAF domain; Region: GAF_3; pfam13492 1138308003636 Histidine kinase; Region: His_kinase; pfam06580 1138308003637 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 1138308003638 ATP binding site [chemical binding]; other site 1138308003639 Mg2+ binding site [ion binding]; other site 1138308003640 G-X-G motif; other site 1138308003641 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 1138308003642 aminotransferase; Validated; Region: PRK08175 1138308003643 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 1138308003644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308003645 homodimer interface [polypeptide binding]; other site 1138308003646 catalytic residue [active] 1138308003647 Cupin domain; Region: Cupin_2; pfam07883 1138308003648 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1138308003649 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1138308003650 oligomer interface [polypeptide binding]; other site 1138308003651 metal binding site [ion binding]; metal-binding site 1138308003652 metal binding site [ion binding]; metal-binding site 1138308003653 putative Cl binding site [ion binding]; other site 1138308003654 basic sphincter; other site 1138308003655 hydrophobic gate; other site 1138308003656 periplasmic entrance; other site 1138308003657 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308003658 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308003659 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 1138308003660 putative dimerization interface [polypeptide binding]; other site 1138308003661 putative substrate binding pocket [chemical binding]; other site 1138308003662 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1138308003663 acetolactate synthase; Reviewed; Region: PRK08617 1138308003664 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1138308003665 PYR/PP interface [polypeptide binding]; other site 1138308003666 dimer interface [polypeptide binding]; other site 1138308003667 TPP binding site [chemical binding]; other site 1138308003668 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1138308003669 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 1138308003670 TPP-binding site [chemical binding]; other site 1138308003671 acetoin reductase; Validated; Region: PRK08643 1138308003672 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1138308003673 NAD binding site [chemical binding]; other site 1138308003674 homotetramer interface [polypeptide binding]; other site 1138308003675 homodimer interface [polypeptide binding]; other site 1138308003676 active site 1138308003677 substrate binding site [chemical binding]; other site 1138308003678 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 1138308003679 amphipathic channel; other site 1138308003680 Asn-Pro-Ala signature motifs; other site 1138308003681 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 1138308003682 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1138308003683 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1138308003684 Walker A/P-loop; other site 1138308003685 ATP binding site [chemical binding]; other site 1138308003686 Q-loop/lid; other site 1138308003687 ABC transporter signature motif; other site 1138308003688 Walker B; other site 1138308003689 D-loop; other site 1138308003690 H-loop/switch region; other site 1138308003691 heme exporter protein CcmB; Region: ccmB; TIGR01190 1138308003692 heme exporter protein CcmC; Region: ccmC; TIGR01191 1138308003693 Heme exporter protein D (CcmD); Region: CcmD; cl11475 1138308003694 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13150 1138308003695 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1138308003696 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 1138308003697 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 1138308003698 catalytic residues [active] 1138308003699 central insert; other site 1138308003700 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 1138308003701 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1138308003702 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 1138308003703 binding surface 1138308003704 TPR motif; other site 1138308003705 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 1138308003706 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 1138308003707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 1138308003708 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1138308003709 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 1138308003710 dimer interface [polypeptide binding]; other site 1138308003711 active site 1138308003712 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1138308003713 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 1138308003714 substrate binding site [chemical binding]; other site 1138308003715 oxyanion hole (OAH) forming residues; other site 1138308003716 trimer interface [polypeptide binding]; other site 1138308003717 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1138308003718 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1138308003719 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 1138308003720 catalytic core [active] 1138308003721 hypothetical protein; Provisional; Region: PRK04946 1138308003722 Smr domain; Region: Smr; pfam01713 1138308003723 HemK family putative methylases; Region: hemK_fam; TIGR00536 1138308003724 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 1138308003725 S-adenosylmethionine binding site [chemical binding]; other site 1138308003726 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1138308003727 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1138308003728 Tetramer interface [polypeptide binding]; other site 1138308003729 active site 1138308003730 FMN-binding site [chemical binding]; other site 1138308003731 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1138308003732 hypothetical protein; Provisional; Region: PRK10621 1138308003733 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1138308003734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 1138308003735 YfcL protein; Region: YfcL; pfam08891 1138308003736 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1138308003737 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1138308003738 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1138308003739 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1138308003740 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 1138308003741 dimer interface [polypeptide binding]; other site 1138308003742 active site 1138308003743 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1138308003744 catalytic triad [active] 1138308003745 putative active site [active] 1138308003746 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 1138308003747 Autotransporter beta-domain; Region: Autotransporter; smart00869 1138308003748 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 1138308003749 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 1138308003750 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1138308003751 ligand binding site [chemical binding]; other site 1138308003752 NAD binding site [chemical binding]; other site 1138308003753 catalytic site [active] 1138308003754 homodimer interface [polypeptide binding]; other site 1138308003755 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 1138308003756 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1138308003757 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1138308003758 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1138308003759 dimerization interface 3.5A [polypeptide binding]; other site 1138308003760 active site 1138308003761 hypothetical protein; Provisional; Region: PRK10847 1138308003762 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1138308003763 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1138308003764 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1138308003765 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1138308003766 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1138308003767 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1138308003768 cell division protein DedD; Provisional; Region: PRK11633 1138308003769 Sporulation related domain; Region: SPOR; pfam05036 1138308003770 colicin V production protein; Provisional; Region: PRK10845 1138308003771 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1138308003772 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1138308003773 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 1138308003774 active site 1138308003775 tetramer interface [polypeptide binding]; other site 1138308003776 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1138308003777 active site 1138308003778 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1138308003779 Flavoprotein; Region: Flavoprotein; pfam02441 1138308003780 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 1138308003781 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 1138308003782 substrate binding pocket [chemical binding]; other site 1138308003783 membrane-bound complex binding site; other site 1138308003784 hinge residues; other site 1138308003785 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 1138308003786 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 1138308003787 substrate binding pocket [chemical binding]; other site 1138308003788 membrane-bound complex binding site; other site 1138308003789 hinge residues; other site 1138308003790 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1138308003791 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 1138308003792 dimer interface [polypeptide binding]; other site 1138308003793 conserved gate region; other site 1138308003794 putative PBP binding loops; other site 1138308003795 ABC-ATPase subunit interface; other site 1138308003796 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1138308003797 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 1138308003798 dimer interface [polypeptide binding]; other site 1138308003799 conserved gate region; other site 1138308003800 putative PBP binding loops; other site 1138308003801 ABC-ATPase subunit interface; other site 1138308003802 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 1138308003803 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1138308003804 Walker A/P-loop; other site 1138308003805 ATP binding site [chemical binding]; other site 1138308003806 Q-loop/lid; other site 1138308003807 ABC transporter signature motif; other site 1138308003808 Walker B; other site 1138308003809 D-loop; other site 1138308003810 H-loop/switch region; other site 1138308003811 RES domain; Region: RES; smart00953 1138308003812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308003813 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1138308003814 NAD(P) binding site [chemical binding]; other site 1138308003815 active site 1138308003816 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1138308003817 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 1138308003818 C-terminal domain interface [polypeptide binding]; other site 1138308003819 GSH binding site (G-site) [chemical binding]; other site 1138308003820 dimer interface [polypeptide binding]; other site 1138308003821 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1138308003822 N-terminal domain interface [polypeptide binding]; other site 1138308003823 putative dimer interface [polypeptide binding]; other site 1138308003824 active site 1138308003825 glutathione S-transferase; Provisional; Region: PRK15113 1138308003826 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 1138308003827 C-terminal domain interface [polypeptide binding]; other site 1138308003828 GSH binding site (G-site) [chemical binding]; other site 1138308003829 dimer interface [polypeptide binding]; other site 1138308003830 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 1138308003831 N-terminal domain interface [polypeptide binding]; other site 1138308003832 putative dimer interface [polypeptide binding]; other site 1138308003833 putative substrate binding pocket (H-site) [chemical binding]; other site 1138308003834 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1138308003835 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1138308003836 active site 1138308003837 metal binding site [ion binding]; metal-binding site 1138308003838 homotetramer interface [polypeptide binding]; other site 1138308003839 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 1138308003840 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 1138308003841 nudix motif; other site 1138308003842 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1138308003843 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308003844 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1138308003845 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308003846 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308003847 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 1138308003848 phosphate acetyltransferase; Reviewed; Region: PRK05632 1138308003849 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 1138308003850 DRTGG domain; Region: DRTGG; pfam07085 1138308003851 phosphate acetyltransferase; Region: pta; TIGR00651 1138308003852 propionate/acetate kinase; Provisional; Region: PRK12379 1138308003853 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1138308003854 hypothetical protein; Provisional; Region: PRK01816 1138308003855 hypothetical protein; Validated; Region: PRK05445 1138308003856 putative phosphatase; Provisional; Region: PRK11587 1138308003857 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 1138308003858 motif II; other site 1138308003859 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1138308003860 transmembrane helices; other site 1138308003861 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1138308003862 TrkA-C domain; Region: TrkA_C; pfam02080 1138308003863 TrkA-C domain; Region: TrkA_C; pfam02080 1138308003864 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1138308003865 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1138308003866 Zn2+ binding site [ion binding]; other site 1138308003867 Mg2+ binding site [ion binding]; other site 1138308003868 aminotransferase AlaT; Validated; Region: PRK09265 1138308003869 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 1138308003870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308003871 homodimer interface [polypeptide binding]; other site 1138308003872 catalytic residue [active] 1138308003873 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 1138308003874 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308003875 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 1138308003876 putative dimerization interface [polypeptide binding]; other site 1138308003877 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1138308003878 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1138308003879 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1138308003880 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1138308003881 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1138308003882 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1138308003883 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 1138308003884 putative dimer interface [polypeptide binding]; other site 1138308003885 [2Fe-2S] cluster binding site [ion binding]; other site 1138308003886 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1138308003887 SLBB domain; Region: SLBB; pfam10531 1138308003888 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1138308003889 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1138308003890 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 1138308003891 catalytic loop [active] 1138308003892 iron binding site [ion binding]; other site 1138308003893 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1138308003894 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 1138308003895 [4Fe-4S] binding site [ion binding]; other site 1138308003896 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 1138308003897 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1138308003898 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1138308003899 4Fe-4S binding domain; Region: Fer4; pfam00037 1138308003900 4Fe-4S binding domain; Region: Fer4; pfam00037 1138308003901 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1138308003902 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1138308003903 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1138308003904 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1138308003905 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1138308003906 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1138308003907 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1138308003908 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1138308003909 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1138308003910 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1138308003911 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1138308003912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308003913 Coenzyme A binding pocket [chemical binding]; other site 1138308003914 hypothetical protein; Provisional; Region: PRK10404 1138308003915 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 1138308003916 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1138308003917 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1138308003918 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1138308003919 dimer interface [polypeptide binding]; other site 1138308003920 tetramer interface [polypeptide binding]; other site 1138308003921 PYR/PP interface [polypeptide binding]; other site 1138308003922 TPP binding site [chemical binding]; other site 1138308003923 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1138308003924 TPP-binding site; other site 1138308003925 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1138308003926 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 1138308003927 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1138308003928 substrate binding site [chemical binding]; other site 1138308003929 oxyanion hole (OAH) forming residues; other site 1138308003930 trimer interface [polypeptide binding]; other site 1138308003931 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1138308003932 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1138308003933 active site 1138308003934 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1138308003935 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1138308003936 acyl-activating enzyme (AAE) consensus motif; other site 1138308003937 putative AMP binding site [chemical binding]; other site 1138308003938 putative active site [active] 1138308003939 putative CoA binding site [chemical binding]; other site 1138308003940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1138308003941 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1138308003942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1138308003943 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1138308003944 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 1138308003945 active site 1138308003946 phosphorylation site [posttranslational modification] 1138308003947 intermolecular recognition site; other site 1138308003948 dimerization interface [polypeptide binding]; other site 1138308003949 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 1138308003950 DNA binding site [nucleotide binding] 1138308003951 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1138308003952 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1138308003953 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1138308003954 dimerization interface [polypeptide binding]; other site 1138308003955 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 1138308003956 dimer interface [polypeptide binding]; other site 1138308003957 phosphorylation site [posttranslational modification] 1138308003958 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 1138308003959 ATP binding site [chemical binding]; other site 1138308003960 G-X-G motif; other site 1138308003961 YfaZ precursor; Region: YfaZ; pfam07437 1138308003962 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1138308003963 hypothetical protein; Provisional; Region: PRK03673 1138308003964 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 1138308003965 putative MPT binding site; other site 1138308003966 Competence-damaged protein; Region: CinA; cl00666 1138308003967 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1138308003968 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 1138308003969 putative substrate translocation pore; other site 1138308003970 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1138308003971 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1138308003972 active site 1138308003973 catalytic site [active] 1138308003974 metal binding site [ion binding]; metal-binding site 1138308003975 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 1138308003976 catalytic loop [active] 1138308003977 iron binding site [ion binding]; other site 1138308003978 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1138308003979 dimer interface [polypeptide binding]; other site 1138308003980 putative radical transfer pathway; other site 1138308003981 diiron center [ion binding]; other site 1138308003982 tyrosyl radical; other site 1138308003983 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1138308003984 ATP cone domain; Region: ATP-cone; pfam03477 1138308003985 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1138308003986 active site 1138308003987 dimer interface [polypeptide binding]; other site 1138308003988 catalytic residues [active] 1138308003989 effector binding site; other site 1138308003990 R2 peptide binding site; other site 1138308003991 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1138308003992 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 1138308003993 S-adenosylmethionine binding site [chemical binding]; other site 1138308003994 DNA gyrase subunit A; Validated; Region: PRK05560 1138308003995 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 1138308003996 CAP-like domain; other site 1138308003997 active site 1138308003998 primary dimer interface [polypeptide binding]; other site 1138308003999 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1138308004000 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1138308004001 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1138308004002 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1138308004003 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1138308004004 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1138308004005 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 1138308004006 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 1138308004007 dimer interface [polypeptide binding]; other site 1138308004008 phosphorylation site [posttranslational modification] 1138308004009 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 1138308004010 ATP binding site [chemical binding]; other site 1138308004011 Mg2+ binding site [ion binding]; other site 1138308004012 G-X-G motif; other site 1138308004013 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 1138308004014 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 1138308004015 active site 1138308004016 phosphorylation site [posttranslational modification] 1138308004017 intermolecular recognition site; other site 1138308004018 dimerization interface [polypeptide binding]; other site 1138308004019 transcriptional regulator RcsB; Provisional; Region: PRK10840 1138308004020 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 1138308004021 active site 1138308004022 phosphorylation site [posttranslational modification] 1138308004023 intermolecular recognition site; other site 1138308004024 dimerization interface [polypeptide binding]; other site 1138308004025 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 1138308004026 DNA binding residues [nucleotide binding] 1138308004027 dimerization interface [polypeptide binding]; other site 1138308004028 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 1138308004029 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 1138308004030 ATP binding site [chemical binding]; other site 1138308004031 Mg2+ binding site [ion binding]; other site 1138308004032 G-X-G motif; other site 1138308004033 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 1138308004034 putative binding surface; other site 1138308004035 active site 1138308004036 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1138308004037 outer membrane porin protein C; Provisional; Region: PRK10554 1138308004038 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 1138308004039 ApbE family; Region: ApbE; pfam02424 1138308004040 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1138308004041 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1138308004042 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308004043 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1138308004044 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 1138308004045 DNA binding site [nucleotide binding] 1138308004046 active site 1138308004047 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1138308004048 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 1138308004049 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1138308004050 Walker A/P-loop; other site 1138308004051 ATP binding site [chemical binding]; other site 1138308004052 Q-loop/lid; other site 1138308004053 ABC transporter signature motif; other site 1138308004054 Walker B; other site 1138308004055 D-loop; other site 1138308004056 H-loop/switch region; other site 1138308004057 high affinity sulphate transporter 1; Region: sulP; TIGR00815 1138308004058 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1138308004059 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1138308004060 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 1138308004061 KTSC domain; Region: KTSC; pfam13619 1138308004062 putative chaperone protein EcpD; Provisional; Region: PRK09926 1138308004063 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1138308004064 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1138308004065 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308004066 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1138308004067 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1138308004068 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1138308004069 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1138308004070 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1138308004071 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 1138308004072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308004073 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1138308004074 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 1138308004075 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 1138308004076 active site 1138308004077 DNA binding site [nucleotide binding] 1138308004078 Int/Topo IB signature motif; other site 1138308004079 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 1138308004080 DNA-sulfur modification-associated; Region: DndB; pfam14072 1138308004081 DGQHR domain; Region: DGQHR; TIGR03187 1138308004082 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308004083 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1138308004084 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 1138308004085 Dimer interface [polypeptide binding]; other site 1138308004086 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 1138308004087 non-specific DNA binding site [nucleotide binding]; other site 1138308004088 Predicted transcriptional regulator [Transcription]; Region: COG2932 1138308004089 salt bridge; other site 1138308004090 sequence-specific DNA binding site [nucleotide binding]; other site 1138308004091 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 1138308004092 Catalytic site [active] 1138308004093 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 1138308004094 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308004095 DNA-binding site [nucleotide binding]; DNA binding site 1138308004096 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 1138308004097 PerC transcriptional activator; Region: PerC; pfam06069 1138308004098 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 1138308004099 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1138308004100 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1138308004101 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1138308004102 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3645 1138308004103 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1138308004104 Antitermination protein; Region: Antiterm; pfam03589 1138308004105 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1138308004106 Protein of unknown function (DUF754); Region: DUF754; pfam05449 1138308004107 Predicted chitinase [General function prediction only]; Region: COG3179 1138308004108 Phage terminase, small subunit; Region: Terminase_4; cl01525 1138308004109 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1138308004110 Phage-related protein [Function unknown]; Region: COG4695 1138308004111 Phage portal protein; Region: Phage_portal; pfam04860 1138308004112 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1138308004113 oligomer interface [polypeptide binding]; other site 1138308004114 active site residues [active] 1138308004115 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1138308004116 Phage capsid family; Region: Phage_capsid; pfam05065 1138308004117 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1138308004118 oligomerization interface [polypeptide binding]; other site 1138308004119 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1138308004120 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 1138308004121 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 1138308004122 Phage tail assembly chaperone; Region: Phage_TAC; pfam06222 1138308004123 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 1138308004124 50S ribosomal protein L37Ae; Reviewed; Region: rpl37ae; PRK03976 1138308004125 Phage-related minor tail protein [Function unknown]; Region: COG5281 1138308004126 tape measure domain; Region: tape_meas_nterm; TIGR02675 1138308004127 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 1138308004128 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1138308004129 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1138308004130 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1138308004131 Phage-related protein [Function unknown]; Region: gp18; COG4672 1138308004132 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1138308004133 MPN+ (JAMM) motif; other site 1138308004134 Zinc-binding site [ion binding]; other site 1138308004135 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1138308004136 NlpC/P60 family; Region: NLPC_P60; cl17555 1138308004137 Phage-related protein, tail component [Function unknown]; Region: COG4723 1138308004138 Phage-related protein, tail component [Function unknown]; Region: COG4733 1138308004139 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1138308004140 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1138308004141 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1138308004142 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1138308004143 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 1138308004144 Catalytic site [active] 1138308004145 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1138308004146 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1138308004147 active site 1138308004148 DNA binding site [nucleotide binding] 1138308004149 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1138308004150 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1138308004151 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1138308004152 Sulfatase; Region: Sulfatase; cl17466 1138308004153 hypothetical protein; Provisional; Region: PRK13689 1138308004154 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1138308004155 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1138308004156 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1138308004157 5S rRNA interface [nucleotide binding]; other site 1138308004158 CTC domain interface [polypeptide binding]; other site 1138308004159 L16 interface [polypeptide binding]; other site 1138308004160 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1138308004161 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 1138308004162 ATP binding site [chemical binding]; other site 1138308004163 putative Mg++ binding site [ion binding]; other site 1138308004164 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 1138308004165 nucleotide binding region [chemical binding]; other site 1138308004166 ATP-binding site [chemical binding]; other site 1138308004167 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 1138308004168 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1138308004169 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 1138308004170 RNA binding surface [nucleotide binding]; other site 1138308004171 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1138308004172 active site 1138308004173 uracil binding [chemical binding]; other site 1138308004174 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 1138308004175 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1138308004176 putative substrate translocation pore; other site 1138308004177 hypothetical protein; Provisional; Region: PRK11835 1138308004178 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 1138308004179 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308004180 Walker A/P-loop; other site 1138308004181 ATP binding site [chemical binding]; other site 1138308004182 Q-loop/lid; other site 1138308004183 ABC transporter signature motif; other site 1138308004184 Walker B; other site 1138308004185 D-loop; other site 1138308004186 H-loop/switch region; other site 1138308004187 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1138308004188 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308004189 Walker A/P-loop; other site 1138308004190 ATP binding site [chemical binding]; other site 1138308004191 Q-loop/lid; other site 1138308004192 ABC transporter signature motif; other site 1138308004193 Walker B; other site 1138308004194 D-loop; other site 1138308004195 H-loop/switch region; other site 1138308004196 microcin C ABC transporter permease; Provisional; Region: PRK15021 1138308004197 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 1138308004198 dimer interface [polypeptide binding]; other site 1138308004199 conserved gate region; other site 1138308004200 ABC-ATPase subunit interface; other site 1138308004201 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1138308004202 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 1138308004203 dimer interface [polypeptide binding]; other site 1138308004204 conserved gate region; other site 1138308004205 putative PBP binding loops; other site 1138308004206 ABC-ATPase subunit interface; other site 1138308004207 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1138308004208 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_14; cd08497 1138308004209 phage resistance protein; Provisional; Region: PRK10551 1138308004210 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1138308004211 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 1138308004212 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 1138308004213 NlpC/P60 family; Region: NLPC_P60; pfam00877 1138308004214 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1138308004215 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1138308004216 active site 1138308004217 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1138308004218 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1138308004219 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1138308004220 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1138308004221 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1138308004222 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1138308004223 mannonate dehydratase; Provisional; Region: PRK03906 1138308004224 mannonate dehydratase; Region: uxuA; TIGR00695 1138308004225 elongation factor P; Provisional; Region: PRK04542 1138308004226 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1138308004227 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 1138308004228 RNA binding site [nucleotide binding]; other site 1138308004229 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 1138308004230 RNA binding site [nucleotide binding]; other site 1138308004231 Flagellin N-methylase; Region: FliB; cl00497 1138308004232 sugar efflux transporter B; Provisional; Region: PRK15011 1138308004233 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 1138308004234 putative substrate translocation pore; other site 1138308004235 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1138308004236 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 1138308004237 active site 1138308004238 phosphorylation site [posttranslational modification] 1138308004239 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 1138308004240 dimerization domain swap beta strand [polypeptide binding]; other site 1138308004241 regulatory protein interface [polypeptide binding]; other site 1138308004242 active site 1138308004243 regulatory phosphorylation site [posttranslational modification]; other site 1138308004244 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1138308004245 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1138308004246 putative substrate binding site [chemical binding]; other site 1138308004247 putative ATP binding site [chemical binding]; other site 1138308004248 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1138308004249 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1138308004250 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1138308004251 active site 1138308004252 P-loop; other site 1138308004253 phosphorylation site [posttranslational modification] 1138308004254 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 1138308004255 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1138308004256 endonuclease IV; Provisional; Region: PRK01060 1138308004257 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1138308004258 AP (apurinic/apyrimidinic) site pocket; other site 1138308004259 DNA interaction; other site 1138308004260 Metal-binding active site; metal-binding site 1138308004261 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1138308004262 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1138308004263 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308004264 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 1138308004265 putative dimerization interface [polypeptide binding]; other site 1138308004266 lysine transporter; Provisional; Region: PRK10836 1138308004267 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1138308004268 S-formylglutathione hydrolase; Region: PLN02442 1138308004269 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 1138308004270 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1138308004271 GTP cyclohydrolase I; Provisional; Region: PLN03044 1138308004272 active site 1138308004273 Predicted membrane protein [Function unknown]; Region: COG2311 1138308004274 hypothetical protein; Provisional; Region: PRK10835 1138308004275 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 1138308004276 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308004277 DNA binding site [nucleotide binding] 1138308004278 domain linker motif; other site 1138308004279 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1138308004280 dimerization interface (closed form) [polypeptide binding]; other site 1138308004281 ligand binding site [chemical binding]; other site 1138308004282 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1138308004283 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1138308004284 ligand binding site [chemical binding]; other site 1138308004285 calcium binding site [ion binding]; other site 1138308004286 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1138308004287 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1138308004288 Walker A/P-loop; other site 1138308004289 ATP binding site [chemical binding]; other site 1138308004290 Q-loop/lid; other site 1138308004291 ABC transporter signature motif; other site 1138308004292 Walker B; other site 1138308004293 D-loop; other site 1138308004294 H-loop/switch region; other site 1138308004295 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1138308004296 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1138308004297 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 1138308004298 TM-ABC transporter signature motif; other site 1138308004299 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 1138308004300 putative active site [active] 1138308004301 cytidine deaminase; Provisional; Region: PRK09027 1138308004302 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1138308004303 active site 1138308004304 catalytic motif [active] 1138308004305 Zn binding site [ion binding]; other site 1138308004306 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1138308004307 active site 1138308004308 catalytic motif [active] 1138308004309 Zn binding site [ion binding]; other site 1138308004310 hypothetical protein; Provisional; Region: PRK10711 1138308004311 hypothetical protein; Provisional; Region: PRK01821 1138308004312 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1138308004313 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 1138308004314 non-specific DNA binding site [nucleotide binding]; other site 1138308004315 salt bridge; other site 1138308004316 sequence-specific DNA binding site [nucleotide binding]; other site 1138308004317 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1138308004318 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 1138308004319 FMN binding site [chemical binding]; other site 1138308004320 active site 1138308004321 catalytic residues [active] 1138308004322 substrate binding site [chemical binding]; other site 1138308004323 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308004324 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308004325 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 1138308004326 putative substrate binding pocket [chemical binding]; other site 1138308004327 putative dimerization interface [polypeptide binding]; other site 1138308004328 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1138308004329 oxidoreductase; Provisional; Region: PRK12743 1138308004330 classical (c) SDRs; Region: SDR_c; cd05233 1138308004331 NAD(P) binding site [chemical binding]; other site 1138308004332 active site 1138308004333 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1138308004334 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1138308004335 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1138308004336 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1138308004337 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1138308004338 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1138308004339 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308004340 Coenzyme A binding pocket [chemical binding]; other site 1138308004341 D-lactate dehydrogenase; Provisional; Region: PRK11183 1138308004342 FAD binding domain; Region: FAD_binding_4; pfam01565 1138308004343 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1138308004344 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1138308004345 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1138308004346 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1138308004347 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1138308004348 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 1138308004349 dimer interface [polypeptide binding]; other site 1138308004350 conserved gate region; other site 1138308004351 ABC-ATPase subunit interface; other site 1138308004352 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1138308004353 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1138308004354 Walker A/P-loop; other site 1138308004355 ATP binding site [chemical binding]; other site 1138308004356 Q-loop/lid; other site 1138308004357 ABC transporter signature motif; other site 1138308004358 Walker B; other site 1138308004359 D-loop; other site 1138308004360 H-loop/switch region; other site 1138308004361 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 1138308004362 putative PBP binding loops; other site 1138308004363 ABC-ATPase subunit interface; other site 1138308004364 transcriptional regulator MirA; Provisional; Region: PRK15043 1138308004365 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 1138308004366 DNA binding residues [nucleotide binding] 1138308004367 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1138308004368 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1138308004369 active site 1138308004370 HIGH motif; other site 1138308004371 KMSKS motif; other site 1138308004372 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1138308004373 tRNA binding surface [nucleotide binding]; other site 1138308004374 anticodon binding site; other site 1138308004375 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 1138308004376 dimer interface [polypeptide binding]; other site 1138308004377 putative tRNA-binding site [nucleotide binding]; other site 1138308004378 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1138308004379 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308004380 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308004381 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1138308004382 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1138308004383 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1138308004384 FtsX-like permease family; Region: FtsX; pfam02687 1138308004385 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1138308004386 ABC transporter; Region: ABC_tran; pfam00005 1138308004387 Q-loop/lid; other site 1138308004388 ABC transporter signature motif; other site 1138308004389 Walker B; other site 1138308004390 D-loop; other site 1138308004391 H-loop/switch region; other site 1138308004392 antiporter inner membrane protein; Provisional; Region: PRK11670 1138308004393 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 1138308004394 Walker A motif; other site 1138308004395 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1138308004396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308004397 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1138308004398 Coenzyme A binding pocket [chemical binding]; other site 1138308004399 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1138308004400 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1138308004401 GAF domain; Region: GAF_3; pfam13492 1138308004402 Histidine kinase; Region: His_kinase; pfam06580 1138308004403 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 1138308004404 ATP binding site [chemical binding]; other site 1138308004405 Mg2+ binding site [ion binding]; other site 1138308004406 G-X-G motif; other site 1138308004407 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1138308004408 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 1138308004409 active site 1138308004410 phosphorylation site [posttranslational modification] 1138308004411 intermolecular recognition site; other site 1138308004412 dimerization interface [polypeptide binding]; other site 1138308004413 LytTr DNA-binding domain; Region: LytTR; pfam04397 1138308004414 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1138308004415 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1138308004416 dimer interface [polypeptide binding]; other site 1138308004417 ligand binding site [chemical binding]; other site 1138308004418 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1138308004419 dimerization interface [polypeptide binding]; other site 1138308004420 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308004421 dimer interface [polypeptide binding]; other site 1138308004422 putative CheW interface [polypeptide binding]; other site 1138308004423 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1138308004424 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308004425 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308004426 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1138308004427 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 1138308004428 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1138308004429 substrate binding site [chemical binding]; other site 1138308004430 multimerization interface [polypeptide binding]; other site 1138308004431 ATP binding site [chemical binding]; other site 1138308004432 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 1138308004433 dimer interface [polypeptide binding]; other site 1138308004434 substrate binding site [chemical binding]; other site 1138308004435 ATP binding site [chemical binding]; other site 1138308004436 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 1138308004437 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1138308004438 putative active site; other site 1138308004439 catalytic residue [active] 1138308004440 lipid kinase; Reviewed; Region: PRK13054 1138308004441 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1138308004442 putative protease; Provisional; Region: PRK15452 1138308004443 Peptidase family U32; Region: Peptidase_U32; pfam01136 1138308004444 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 1138308004445 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 1138308004446 active site 1138308004447 phosphorylation site [posttranslational modification] 1138308004448 intermolecular recognition site; other site 1138308004449 dimerization interface [polypeptide binding]; other site 1138308004450 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 1138308004451 DNA binding site [nucleotide binding] 1138308004452 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 1138308004453 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 1138308004454 dimerization interface [polypeptide binding]; other site 1138308004455 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 1138308004456 dimer interface [polypeptide binding]; other site 1138308004457 phosphorylation site [posttranslational modification] 1138308004458 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 1138308004459 ATP binding site [chemical binding]; other site 1138308004460 Mg2+ binding site [ion binding]; other site 1138308004461 G-X-G motif; other site 1138308004462 putative transporter; Provisional; Region: PRK10504 1138308004463 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 1138308004464 putative substrate translocation pore; other site 1138308004465 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1138308004466 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1138308004467 Protein export membrane protein; Region: SecD_SecF; cl14618 1138308004468 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 1138308004469 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308004470 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308004471 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1138308004472 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 1138308004473 salt bridge; other site 1138308004474 non-specific DNA binding site [nucleotide binding]; other site 1138308004475 sequence-specific DNA binding site [nucleotide binding]; other site 1138308004476 putative chaperone; Provisional; Region: PRK11678 1138308004477 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1138308004478 nucleotide binding site [chemical binding]; other site 1138308004479 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1138308004480 SBD interface [polypeptide binding]; other site 1138308004481 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1138308004482 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1138308004483 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1138308004484 minor groove reading motif; other site 1138308004485 helix-hairpin-helix signature motif; other site 1138308004486 substrate binding pocket [chemical binding]; other site 1138308004487 active site 1138308004488 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 1138308004489 putative diguanylate cyclase; Provisional; Region: PRK09776 1138308004490 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 1138308004491 putative active site [active] 1138308004492 heme pocket [chemical binding]; other site 1138308004493 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 1138308004494 putative active site [active] 1138308004495 heme pocket [chemical binding]; other site 1138308004496 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 1138308004497 putative active site [active] 1138308004498 heme pocket [chemical binding]; other site 1138308004499 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308004500 metal binding site [ion binding]; metal-binding site 1138308004501 active site 1138308004502 I-site; other site 1138308004503 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; cl00290 1138308004504 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1138308004505 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1138308004506 ATP-binding site [chemical binding]; other site 1138308004507 Sugar specificity; other site 1138308004508 Pyrimidine base specificity; other site 1138308004509 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1138308004510 trimer interface [polypeptide binding]; other site 1138308004511 active site 1138308004512 putative assembly protein; Provisional; Region: PRK10833 1138308004513 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1138308004514 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1138308004515 FOG: CBS domain [General function prediction only]; Region: COG0517 1138308004516 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 1138308004517 Transporter associated domain; Region: CorC_HlyC; smart01091 1138308004518 polysaccharide export protein Wza; Provisional; Region: PRK15078 1138308004519 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1138308004520 SLBB domain; Region: SLBB; pfam10531 1138308004521 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1138308004522 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1138308004523 active site 1138308004524 tyrosine kinase; Provisional; Region: PRK11519 1138308004525 Chain length determinant protein; Region: Wzz; pfam02706 1138308004526 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1138308004527 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 1138308004528 putative glycosyl transferase; Provisional; Region: PRK10018 1138308004529 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1138308004530 active site 1138308004531 putative acyl transferase; Provisional; Region: PRK10191 1138308004532 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 1138308004533 trimer interface [polypeptide binding]; other site 1138308004534 active site 1138308004535 substrate binding site [chemical binding]; other site 1138308004536 CoA binding site [chemical binding]; other site 1138308004537 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 1138308004538 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 1138308004539 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 1138308004540 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1138308004541 putative glycosyl transferase; Provisional; Region: PRK10063 1138308004542 active site 1138308004543 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 1138308004544 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 1138308004545 putative trimer interface [polypeptide binding]; other site 1138308004546 putative active site [active] 1138308004547 putative substrate binding site [chemical binding]; other site 1138308004548 putative CoA binding site [chemical binding]; other site 1138308004549 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1138308004550 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1138308004551 NADP-binding site; other site 1138308004552 homotetramer interface [polypeptide binding]; other site 1138308004553 substrate binding site [chemical binding]; other site 1138308004554 homodimer interface [polypeptide binding]; other site 1138308004555 active site 1138308004556 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1138308004557 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1138308004558 NADP binding site [chemical binding]; other site 1138308004559 active site 1138308004560 putative substrate binding site [chemical binding]; other site 1138308004561 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 1138308004562 active site 1138308004563 GDP-Mannose binding site [chemical binding]; other site 1138308004564 dimer interface [polypeptide binding]; other site 1138308004565 modified nudix motif 1138308004566 metal binding site [ion binding]; metal-binding site 1138308004567 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 1138308004568 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 1138308004569 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 1138308004570 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1138308004571 Substrate binding site; other site 1138308004572 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1138308004573 phosphomannomutase CpsG; Provisional; Region: PRK15414 1138308004574 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 1138308004575 active site 1138308004576 substrate binding site [chemical binding]; other site 1138308004577 metal binding site [ion binding]; metal-binding site 1138308004578 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 1138308004579 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1138308004580 colanic acid exporter; Provisional; Region: PRK10459 1138308004581 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1138308004582 colanic acid biosynthesis pyruvyl transferase WcaK; Region: wcaK; TIGR04006 1138308004583 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 1138308004584 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 1138308004585 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 1138308004586 putative ADP-binding pocket [chemical binding]; other site 1138308004587 colanic acid biosynthesis protein WcaM; Region: WcaM; TIGR04004 1138308004588 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 1138308004589 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1138308004590 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1138308004591 putative NAD(P) binding site [chemical binding]; other site 1138308004592 active site 1138308004593 putative substrate binding site [chemical binding]; other site 1138308004594 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1138308004595 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1138308004596 active site 1138308004597 tetramer interface; other site 1138308004598 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1138308004599 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1138308004600 NAD binding site [chemical binding]; other site 1138308004601 substrate binding site [chemical binding]; other site 1138308004602 homodimer interface [polypeptide binding]; other site 1138308004603 active site 1138308004604 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1138308004605 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1138308004606 substrate binding site; other site 1138308004607 tetramer interface; other site 1138308004608 WxcM-like, C-terminal; Region: FdtA; pfam05523 1138308004609 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 1138308004610 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1138308004611 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1138308004612 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 1138308004613 inhibitor-cofactor binding pocket; inhibition site 1138308004614 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308004615 catalytic residue [active] 1138308004616 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1138308004617 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 1138308004618 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1138308004619 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1138308004620 active site 1138308004621 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1138308004622 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1138308004623 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1138308004624 chain length determinant protein WzzB; Provisional; Region: PRK15471 1138308004625 Chain length determinant protein; Region: Wzz; pfam02706 1138308004626 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1138308004627 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1138308004628 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 1138308004629 metal binding site [ion binding]; metal-binding site 1138308004630 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 1138308004631 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1138308004632 substrate binding site [chemical binding]; other site 1138308004633 glutamase interaction surface [polypeptide binding]; other site 1138308004634 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 1138308004635 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1138308004636 catalytic residues [active] 1138308004637 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1138308004638 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1138308004639 putative active site [active] 1138308004640 oxyanion strand; other site 1138308004641 catalytic triad [active] 1138308004642 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1138308004643 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 1138308004644 active site 1138308004645 motif I; other site 1138308004646 motif II; other site 1138308004647 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1138308004648 putative active site pocket [active] 1138308004649 4-fold oligomerization interface [polypeptide binding]; other site 1138308004650 metal binding residues [ion binding]; metal-binding site 1138308004651 3-fold/trimer interface [polypeptide binding]; other site 1138308004652 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1138308004653 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 1138308004654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308004655 homodimer interface [polypeptide binding]; other site 1138308004656 catalytic residue [active] 1138308004657 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1138308004658 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 1138308004659 NAD binding site [chemical binding]; other site 1138308004660 dimerization interface [polypeptide binding]; other site 1138308004661 product binding site; other site 1138308004662 substrate binding site [chemical binding]; other site 1138308004663 zinc binding site [ion binding]; other site 1138308004664 catalytic residues [active] 1138308004665 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1138308004666 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1138308004667 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1138308004668 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1138308004669 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1138308004670 putative NAD(P) binding site [chemical binding]; other site 1138308004671 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 1138308004672 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1138308004673 catalytic triad [active] 1138308004674 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 1138308004675 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 1138308004676 inhibitor-cofactor binding pocket; inhibition site 1138308004677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308004678 catalytic residue [active] 1138308004679 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1138308004680 exonuclease I; Provisional; Region: sbcB; PRK11779 1138308004681 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1138308004682 active site 1138308004683 catalytic site [active] 1138308004684 substrate binding site [chemical binding]; other site 1138308004685 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1138308004686 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1138308004687 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 1138308004688 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1138308004689 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1138308004690 DNA gyrase inhibitor; Provisional; Region: PRK10016 1138308004691 Predicted membrane protein [Function unknown]; Region: COG1289 1138308004692 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1138308004693 hypothetical protein; Provisional; Region: PRK05423 1138308004694 MATE family multidrug exporter; Provisional; Region: PRK10189 1138308004695 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1138308004696 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1138308004697 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1138308004698 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1138308004699 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1138308004700 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1138308004701 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1138308004702 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1138308004703 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 1138308004704 AMP nucleosidase; Provisional; Region: PRK08292 1138308004705 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1138308004706 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1138308004707 Sensors of blue-light using FAD; Region: BLUF; smart01034 1138308004708 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 1138308004709 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1138308004710 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1138308004711 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1138308004712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308004713 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 1138308004714 putative dimerization interface [polypeptide binding]; other site 1138308004715 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 1138308004716 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 1138308004717 dimerization interface [polypeptide binding]; other site 1138308004718 shikimate transporter; Provisional; Region: PRK09952 1138308004719 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 1138308004720 putative substrate translocation pore; other site 1138308004721 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 1138308004722 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308004723 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308004724 metal binding site [ion binding]; metal-binding site 1138308004725 active site 1138308004726 I-site; other site 1138308004727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308004728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308004729 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 1138308004730 putative effector binding pocket; other site 1138308004731 dimerization interface [polypeptide binding]; other site 1138308004732 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1138308004733 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1138308004734 potential catalytic triad [active] 1138308004735 conserved cys residue [active] 1138308004736 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1138308004737 classical (c) SDRs; Region: SDR_c; cd05233 1138308004738 NAD(P) binding site [chemical binding]; other site 1138308004739 active site 1138308004740 DinI-like family; Region: DinI; pfam06183 1138308004741 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1138308004742 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 1138308004743 trimer interface [polypeptide binding]; other site 1138308004744 eyelet of channel; other site 1138308004745 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1138308004746 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1138308004747 Zn2+ binding site [ion binding]; other site 1138308004748 Mg2+ binding site [ion binding]; other site 1138308004749 DNA cytosine methylase; Provisional; Region: PRK10458 1138308004750 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 1138308004751 cofactor binding site; other site 1138308004752 DNA binding site [nucleotide binding] 1138308004753 substrate interaction site [chemical binding]; other site 1138308004754 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 1138308004755 additional DNA contacts [nucleotide binding]; other site 1138308004756 mismatch recognition site; other site 1138308004757 active site 1138308004758 zinc binding site [ion binding]; other site 1138308004759 DNA intercalation site [nucleotide binding]; other site 1138308004760 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1138308004761 EamA-like transporter family; Region: EamA; pfam00892 1138308004762 EamA-like transporter family; Region: EamA; pfam00892 1138308004763 hypothetical protein; Provisional; Region: PRK10062 1138308004764 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 1138308004765 potential frameshift: common BLAST hit: gi|260598464|ref|YP_003211035.1| diguanylate cyclase YedQ 1138308004766 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 1138308004767 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308004768 metal binding site [ion binding]; metal-binding site 1138308004769 active site 1138308004770 I-site; other site 1138308004771 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308004772 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 1138308004773 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 1138308004774 active site 1138308004775 motif I; other site 1138308004776 motif II; other site 1138308004777 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 1138308004778 hypothetical protein; Provisional; Region: PRK10708 1138308004779 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 1138308004780 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 1138308004781 DNA binding residues [nucleotide binding] 1138308004782 dimerization interface [polypeptide binding]; other site 1138308004783 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1138308004784 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1138308004785 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1138308004786 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 1138308004787 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 1138308004788 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1138308004789 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1138308004790 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1138308004791 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 1138308004792 flagellar hook-length control protein; Provisional; Region: PRK10118 1138308004793 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 1138308004794 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1138308004795 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1138308004796 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 1138308004797 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 1138308004798 Walker A motif/ATP binding site; other site 1138308004799 Walker B motif; other site 1138308004800 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1138308004801 Flagellar assembly protein FliH; Region: FliH; pfam02108 1138308004802 flagellar motor switch protein FliG; Region: fliG; TIGR00207 1138308004803 FliG C-terminal domain; Region: FliG_C; pfam01706 1138308004804 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1138308004805 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1138308004806 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1138308004807 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1138308004808 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1138308004809 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1138308004810 active site 1138308004811 DNA binding site [nucleotide binding] 1138308004812 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1138308004813 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 1138308004814 active site 1138308004815 DNA binding site [nucleotide binding] 1138308004816 Int/Topo IB signature motif; other site 1138308004817 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1138308004818 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 1138308004819 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1138308004820 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 1138308004821 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1138308004822 sequence-specific DNA binding site [nucleotide binding]; other site 1138308004823 salt bridge; other site 1138308004824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308004825 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1138308004826 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1138308004827 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 1138308004828 putative substrate translocation pore; other site 1138308004829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308004830 transcriptional activator TtdR; Provisional; Region: PRK09801 1138308004831 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 1138308004832 putative effector binding pocket; other site 1138308004833 dimerization interface [polypeptide binding]; other site 1138308004834 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1138308004835 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 1138308004836 S-adenosylmethionine binding site [chemical binding]; other site 1138308004837 hypothetical protein; Provisional; Region: PRK09951 1138308004838 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 1138308004839 CPxP motif; other site 1138308004840 putative inner membrane protein; Provisional; Region: PRK11099 1138308004841 lipoprotein; Provisional; Region: PRK10397 1138308004842 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 1138308004843 flagellar protein FliS; Validated; Region: fliS; PRK05685 1138308004844 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1138308004845 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1138308004846 flagellin; Provisional; Region: PRK12802 1138308004847 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1138308004848 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1138308004849 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 1138308004850 S-adenosylmethionine binding site [chemical binding]; other site 1138308004851 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 1138308004852 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1138308004853 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 1138308004854 TPR motif; other site 1138308004855 TPR repeat; Region: TPR_11; pfam13414 1138308004856 binding surface 1138308004857 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1138308004858 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 1138308004859 inhibitor-cofactor binding pocket; inhibition site 1138308004860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308004861 catalytic residue [active] 1138308004862 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1138308004863 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1138308004864 putative trimer interface [polypeptide binding]; other site 1138308004865 putative CoA binding site [chemical binding]; other site 1138308004866 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1138308004867 NAD(P) binding site [chemical binding]; other site 1138308004868 catalytic residues [active] 1138308004869 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1138308004870 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1138308004871 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1138308004872 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 1138308004873 DNA binding residues [nucleotide binding] 1138308004874 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 1138308004875 cystine transporter subunit; Provisional; Region: PRK11260 1138308004876 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 1138308004877 substrate binding pocket [chemical binding]; other site 1138308004878 membrane-bound complex binding site; other site 1138308004879 hinge residues; other site 1138308004880 D-cysteine desulfhydrase; Validated; Region: PRK03910 1138308004881 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 1138308004882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308004883 catalytic residue [active] 1138308004884 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1138308004885 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 1138308004886 dimer interface [polypeptide binding]; other site 1138308004887 conserved gate region; other site 1138308004888 putative PBP binding loops; other site 1138308004889 ABC-ATPase subunit interface; other site 1138308004890 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 1138308004891 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1138308004892 Walker A/P-loop; other site 1138308004893 ATP binding site [chemical binding]; other site 1138308004894 Q-loop/lid; other site 1138308004895 ABC transporter signature motif; other site 1138308004896 Walker B; other site 1138308004897 D-loop; other site 1138308004898 H-loop/switch region; other site 1138308004899 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1138308004900 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1138308004901 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 1138308004902 DNA binding residues [nucleotide binding] 1138308004903 dimerization interface [polypeptide binding]; other site 1138308004904 hypothetical protein; Provisional; Region: PRK10613 1138308004905 response regulator; Provisional; Region: PRK09483 1138308004906 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 1138308004907 active site 1138308004908 phosphorylation site [posttranslational modification] 1138308004909 intermolecular recognition site; other site 1138308004910 dimerization interface [polypeptide binding]; other site 1138308004911 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 1138308004912 DNA binding residues [nucleotide binding] 1138308004913 dimerization interface [polypeptide binding]; other site 1138308004914 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1138308004915 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1138308004916 GIY-YIG motif/motif A; other site 1138308004917 active site 1138308004918 catalytic site [active] 1138308004919 putative DNA binding site [nucleotide binding]; other site 1138308004920 metal binding site [ion binding]; metal-binding site 1138308004921 UvrB/uvrC motif; Region: UVR; pfam02151 1138308004922 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1138308004923 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 1138308004924 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308004925 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1138308004926 Coenzyme A binding pocket [chemical binding]; other site 1138308004927 tyrosine transporter TyrP; Provisional; Region: PRK15132 1138308004928 aromatic amino acid transport protein; Region: araaP; TIGR00837 1138308004929 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1138308004930 Ferritin-like domain; Region: Ferritin; pfam00210 1138308004931 ferroxidase diiron center [ion binding]; other site 1138308004932 YecR-like lipoprotein; Region: YecR; pfam13992 1138308004933 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1138308004934 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308004935 dimer interface [polypeptide binding]; other site 1138308004936 putative CheW interface [polypeptide binding]; other site 1138308004937 hypothetical protein; Provisional; Region: PRK09273 1138308004938 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 1138308004939 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 1138308004940 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 1138308004941 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1138308004942 putative substrate translocation pore; other site 1138308004943 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 1138308004944 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1138308004945 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1138308004946 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1138308004947 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308004948 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1138308004949 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1138308004950 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1138308004951 Ferritin-like domain; Region: Ferritin; pfam00210 1138308004952 ferroxidase diiron center [ion binding]; other site 1138308004953 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 1138308004954 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1138308004955 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 1138308004956 ligand binding site [chemical binding]; other site 1138308004957 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 1138308004958 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1138308004959 Walker A/P-loop; other site 1138308004960 ATP binding site [chemical binding]; other site 1138308004961 Q-loop/lid; other site 1138308004962 ABC transporter signature motif; other site 1138308004963 Walker B; other site 1138308004964 D-loop; other site 1138308004965 H-loop/switch region; other site 1138308004966 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1138308004967 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 1138308004968 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1138308004969 TM-ABC transporter signature motif; other site 1138308004970 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 1138308004971 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 1138308004972 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1138308004973 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1138308004974 active site 1138308004975 homotetramer interface [polypeptide binding]; other site 1138308004976 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 1138308004977 Ligand Binding Site [chemical binding]; other site 1138308004978 transcriptional activator FlhD; Provisional; Region: PRK02909 1138308004979 transcriptional activator FlhC; Provisional; Region: PRK12722 1138308004980 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1138308004981 flagellar motor protein MotA; Validated; Region: PRK09110 1138308004982 flagellar motor protein MotB; Validated; Region: motB; PRK09041 1138308004983 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1138308004984 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1138308004985 ligand binding site [chemical binding]; other site 1138308004986 chemotaxis protein CheA; Provisional; Region: PRK10547 1138308004987 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 1138308004988 putative binding surface; other site 1138308004989 active site 1138308004990 CheY binding; Region: CheY-binding; pfam09078 1138308004991 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1138308004992 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 1138308004993 ATP binding site [chemical binding]; other site 1138308004994 Mg2+ binding site [ion binding]; other site 1138308004995 G-X-G motif; other site 1138308004996 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 1138308004997 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 1138308004998 putative CheA interaction surface; other site 1138308004999 Spore Coat Protein U domain; Region: SCPU; pfam05229 1138308005000 Spore Coat Protein U domain; Region: SCPU; pfam05229 1138308005001 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1138308005002 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1138308005003 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1138308005004 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1138308005005 PapC C-terminal domain; Region: PapC_C; pfam13953 1138308005006 Spore Coat Protein U domain; Region: SCPU; pfam05229 1138308005007 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1138308005008 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1138308005009 dimer interface [polypeptide binding]; other site 1138308005010 ligand binding site [chemical binding]; other site 1138308005011 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 1138308005012 dimerization interface [polypeptide binding]; other site 1138308005013 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308005014 dimer interface [polypeptide binding]; other site 1138308005015 putative CheW interface [polypeptide binding]; other site 1138308005016 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1138308005017 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1138308005018 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 1138308005019 S-adenosylmethionine binding site [chemical binding]; other site 1138308005020 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1138308005021 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 1138308005022 active site 1138308005023 phosphorylation site [posttranslational modification] 1138308005024 intermolecular recognition site; other site 1138308005025 dimerization interface [polypeptide binding]; other site 1138308005026 CheB methylesterase; Region: CheB_methylest; pfam01339 1138308005027 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1138308005028 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 1138308005029 active site 1138308005030 phosphorylation site [posttranslational modification] 1138308005031 intermolecular recognition site; other site 1138308005032 dimerization interface [polypeptide binding]; other site 1138308005033 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1138308005034 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 1138308005035 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1138308005036 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1138308005037 FHIPEP family; Region: FHIPEP; pfam00771 1138308005038 Flagellar protein FlhE; Region: FlhE; pfam06366 1138308005039 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1138308005040 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 1138308005041 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 1138308005042 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; cl00047 1138308005043 ligand binding site [chemical binding]; other site 1138308005044 flexible hinge region; other site 1138308005045 Transcriptional regulator; Region: Rrf2; cl17282 1138308005046 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1138308005047 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1138308005048 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1138308005049 active site 1138308005050 HIGH motif; other site 1138308005051 KMSK motif region; other site 1138308005052 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1138308005053 tRNA binding surface [nucleotide binding]; other site 1138308005054 anticodon binding site; other site 1138308005055 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_4; cd07268 1138308005056 putative metal binding site [ion binding]; other site 1138308005057 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 1138308005058 putative hydrophobic ligand binding site [chemical binding]; other site 1138308005059 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1138308005060 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1138308005061 NAD binding site [chemical binding]; other site 1138308005062 catalytic Zn binding site [ion binding]; other site 1138308005063 structural Zn binding site [ion binding]; other site 1138308005064 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 1138308005065 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 1138308005066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308005067 homodimer interface [polypeptide binding]; other site 1138308005068 catalytic residue [active] 1138308005069 copper homeostasis protein CutC; Provisional; Region: PRK11572 1138308005070 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1138308005071 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 1138308005072 nucleotide binding site [chemical binding]; other site 1138308005073 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1138308005074 SBD interface [polypeptide binding]; other site 1138308005075 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 1138308005076 HSP70 interaction site [polypeptide binding]; other site 1138308005077 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1138308005078 BON domain; Region: BON; pfam04972 1138308005079 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1138308005080 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 1138308005081 S-adenosylmethionine binding site [chemical binding]; other site 1138308005082 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1138308005083 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 1138308005084 S-adenosylmethionine binding site [chemical binding]; other site 1138308005085 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 1138308005086 hypothetical protein; Provisional; Region: PRK10302 1138308005087 Isochorismatase family; Region: Isochorismatase; pfam00857 1138308005088 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 1138308005089 catalytic triad [active] 1138308005090 conserved cis-peptide bond; other site 1138308005091 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1138308005092 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 1138308005093 dimer interface [polypeptide binding]; other site 1138308005094 anticodon binding site; other site 1138308005095 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 1138308005096 homodimer interface [polypeptide binding]; other site 1138308005097 motif 1; other site 1138308005098 active site 1138308005099 motif 2; other site 1138308005100 GAD domain; Region: GAD; pfam02938 1138308005101 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 1138308005102 active site 1138308005103 motif 3; other site 1138308005104 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_7; cd04664 1138308005105 nudix motif; other site 1138308005106 hypothetical protein; Validated; Region: PRK00110 1138308005107 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 1138308005108 active site 1138308005109 putative DNA-binding cleft [nucleotide binding]; other site 1138308005110 dimer interface [polypeptide binding]; other site 1138308005111 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1138308005112 RuvA N terminal domain; Region: RuvA_N; pfam01330 1138308005113 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1138308005114 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1138308005115 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 1138308005116 Walker A motif; other site 1138308005117 ATP binding site [chemical binding]; other site 1138308005118 Walker B motif; other site 1138308005119 arginine finger; other site 1138308005120 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1138308005121 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1138308005122 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 1138308005123 ABC-ATPase subunit interface; other site 1138308005124 dimer interface [polypeptide binding]; other site 1138308005125 putative PBP binding regions; other site 1138308005126 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1138308005127 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1138308005128 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1138308005129 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1138308005130 metal binding site [ion binding]; metal-binding site 1138308005131 putative peptidase; Provisional; Region: PRK11649 1138308005132 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1138308005133 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1138308005134 Peptidase family M23; Region: Peptidase_M23; pfam01551 1138308005135 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1138308005136 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1138308005137 putative acyl-acceptor binding pocket; other site 1138308005138 pyruvate kinase; Provisional; Region: PRK05826 1138308005139 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 1138308005140 domain interfaces; other site 1138308005141 active site 1138308005142 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1138308005143 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1138308005144 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 1138308005145 putative active site [active] 1138308005146 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1138308005147 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1138308005148 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1138308005149 phosphogluconate dehydratase; Validated; Region: PRK09054 1138308005150 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1138308005151 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1138308005152 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1138308005153 active site 1138308005154 intersubunit interface [polypeptide binding]; other site 1138308005155 catalytic residue [active] 1138308005156 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1138308005157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308005158 ATP-grasp domain; Region: ATP-grasp; pfam02222 1138308005159 YebG protein; Region: YebG; pfam07130 1138308005160 hypothetical protein; Provisional; Region: PRK13680 1138308005161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 1138308005162 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1138308005163 putative metal binding site [ion binding]; other site 1138308005164 protease 2; Provisional; Region: PRK10115 1138308005165 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1138308005166 exodeoxyribonuclease X; Provisional; Region: PRK07983 1138308005167 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1138308005168 active site 1138308005169 catalytic site [active] 1138308005170 substrate binding site [chemical binding]; other site 1138308005171 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 1138308005172 CopC domain; Region: CopC; cl01012 1138308005173 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 1138308005174 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 1138308005175 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1138308005176 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1138308005177 active site 1138308005178 metal binding site [ion binding]; metal-binding site 1138308005179 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 1138308005180 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 1138308005181 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1138308005182 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 1138308005183 S-adenosylmethionine binding site [chemical binding]; other site 1138308005184 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1138308005185 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1138308005186 mce related protein; Region: MCE; pfam02470 1138308005187 mce related protein; Region: MCE; pfam02470 1138308005188 mce related protein; Region: MCE; pfam02470 1138308005189 mce related protein; Region: MCE; pfam02470 1138308005190 mce related protein; Region: MCE; pfam02470 1138308005191 mce related protein; Region: MCE; pfam02470 1138308005192 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 1138308005193 Paraquat-inducible protein A; Region: PqiA; pfam04403 1138308005194 Paraquat-inducible protein A; Region: PqiA; pfam04403 1138308005195 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1138308005196 GAF domain; Region: GAF_2; pfam13185 1138308005197 ProP expression regulator; Provisional; Region: PRK04950 1138308005198 ProQ/FINO family; Region: ProQ; pfam04352 1138308005199 carboxy-terminal protease; Provisional; Region: PRK11186 1138308005200 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 1138308005201 protein binding site [polypeptide binding]; other site 1138308005202 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1138308005203 Catalytic dyad [active] 1138308005204 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1138308005205 heat shock protein HtpX; Provisional; Region: PRK05457 1138308005206 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 1138308005207 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 1138308005208 dimerization interface [polypeptide binding]; other site 1138308005209 putative Zn2+ binding site [ion binding]; other site 1138308005210 putative DNA binding site [nucleotide binding]; other site 1138308005211 Bacterial transcriptional regulator; Region: IclR; pfam01614 1138308005212 YobH-like protein; Region: YobH; pfam13996 1138308005213 YebO-like protein; Region: YebO; pfam13974 1138308005214 potential frameshift: common BLAST hit: gi|260598299|ref|YP_003210870.1| N-acyl-phosphatidylethanolamine-hydrolyzing phospholipase D 1138308005215 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1138308005216 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1138308005217 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 1138308005218 DNA-binding site [nucleotide binding]; DNA binding site 1138308005219 RNA-binding motif; other site 1138308005220 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1138308005221 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 1138308005222 S-adenosylmethionine binding site [chemical binding]; other site 1138308005223 hypothetical protein; Provisional; Region: PRK11469 1138308005224 Domain of unknown function DUF; Region: DUF204; pfam02659 1138308005225 Domain of unknown function DUF; Region: DUF204; pfam02659 1138308005226 hypothetical protein; Provisional; Region: PRK02913 1138308005227 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 1138308005228 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1138308005229 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1138308005230 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; cd00006 1138308005231 active pocket/dimerization site; other site 1138308005232 active site 1138308005233 phosphorylation site [posttranslational modification] 1138308005234 PTS_IIB, PTS system, Mannose/sorbose specific IIB 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_IIB_man; cd00001 1138308005235 active site 1138308005236 phosphorylation site [posttranslational modification] 1138308005237 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1138308005238 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1138308005239 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 1138308005240 Transporter associated domain; Region: CorC_HlyC; smart01091 1138308005241 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1138308005242 phage resistance protein; Provisional; Region: PRK10551 1138308005243 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 1138308005244 L-serine deaminase; Provisional; Region: PRK15023 1138308005245 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1138308005246 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1138308005247 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 1138308005248 putative active site [active] 1138308005249 putative CoA binding site [chemical binding]; other site 1138308005250 nudix motif; other site 1138308005251 metal binding site [ion binding]; metal-binding site 1138308005252 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 1138308005253 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1138308005254 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 1138308005255 hypothetical protein; Provisional; Region: PRK05114 1138308005256 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07204 1138308005257 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 1138308005258 dimer interface [polypeptide binding]; other site 1138308005259 active site 1138308005260 CoA binding pocket [chemical binding]; other site 1138308005261 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1138308005262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308005263 NAD(P) binding site [chemical binding]; other site 1138308005264 active site 1138308005265 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1138308005266 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1138308005267 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 1138308005268 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1138308005269 active site 1138308005270 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1138308005271 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1138308005272 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1138308005273 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1138308005274 putative di-iron ligands [ion binding]; other site 1138308005275 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1138308005276 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1138308005277 putative di-iron ligands [ion binding]; other site 1138308005278 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 1138308005279 homotrimer interaction site [polypeptide binding]; other site 1138308005280 putative active site [active] 1138308005281 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1138308005282 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1138308005283 ATP binding site [chemical binding]; other site 1138308005284 DEAD_2; Region: DEAD_2; pfam06733 1138308005285 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1138308005286 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1138308005287 Glycoprotease family; Region: Peptidase_M22; pfam00814 1138308005288 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 1138308005289 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1138308005290 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1138308005291 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1138308005292 acyl-activating enzyme (AAE) consensus motif; other site 1138308005293 putative AMP binding site [chemical binding]; other site 1138308005294 putative active site [active] 1138308005295 putative CoA binding site [chemical binding]; other site 1138308005296 ribonuclease D; Provisional; Region: PRK10829 1138308005297 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1138308005298 catalytic site [active] 1138308005299 putative active site [active] 1138308005300 putative substrate binding site [chemical binding]; other site 1138308005301 HRDC domain; Region: HRDC; pfam00570 1138308005302 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1138308005303 cell division inhibitor MinD; Provisional; Region: PRK10818 1138308005304 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 1138308005305 Switch I; other site 1138308005306 Switch II; other site 1138308005307 septum formation inhibitor; Reviewed; Region: minC; PRK03511 1138308005308 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1138308005309 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1138308005310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 1138308005311 hypothetical protein; Provisional; Region: PRK10691 1138308005312 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 1138308005313 hypothetical protein; Provisional; Region: PRK05170 1138308005314 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1138308005315 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1138308005316 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 1138308005317 Int/Topo IB signature motif; other site 1138308005318 HTH-like domain; Region: HTH_21; pfam13276 1138308005319 Integrase core domain; Region: rve; pfam00665 1138308005320 Integrase core domain; Region: rve_3; pfam13683 1138308005321 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1138308005322 Transposase; Region: HTH_Tnp_1; cl17663 1138308005323 Terminase small subunit; Region: Terminase_2; pfam03592 1138308005324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 1138308005325 Terminase-like family; Region: Terminase_6; pfam03237 1138308005326 Uncharacterized conserved protein [Function unknown]; Region: COG5323 1138308005327 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 1138308005328 potential frameshift: common BLAST hit: gi|345299839|ref|YP_004829197.1| phage head morphogenesis protein 1138308005329 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1138308005330 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 1138308005331 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1138308005332 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1138308005333 active site 1138308005334 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1138308005335 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1138308005336 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1138308005337 Glucosyl transferase GtrII; Region: Glucos_trans_II; pfam14264 1138308005338 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1138308005339 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1138308005340 Ligand binding site; other site 1138308005341 Putative Catalytic site; other site 1138308005342 DXD motif; other site 1138308005343 Predicted membrane protein [Function unknown]; Region: COG2246 1138308005344 disulfide bond formation protein B; Provisional; Region: PRK01749 1138308005345 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; cd00625 1138308005346 transmembrane helices; other site 1138308005347 fatty acid metabolism regulator; Provisional; Region: PRK04984 1138308005348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308005349 DNA-binding site [nucleotide binding]; DNA binding site 1138308005350 FadR C-terminal domain; Region: FadR_C; pfam07840 1138308005351 SpoVR family protein; Provisional; Region: PRK11767 1138308005352 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1138308005353 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1138308005354 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1138308005355 alanine racemase; Reviewed; Region: dadX; PRK03646 1138308005356 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1138308005357 active site 1138308005358 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1138308005359 substrate binding site [chemical binding]; other site 1138308005360 catalytic residues [active] 1138308005361 dimer interface [polypeptide binding]; other site 1138308005362 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 1138308005363 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1138308005364 TrkA-C domain; Region: TrkA_C; pfam02080 1138308005365 Transporter associated domain; Region: CorC_HlyC; smart01091 1138308005366 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1138308005367 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 1138308005368 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1138308005369 dimer interface [polypeptide binding]; other site 1138308005370 catalytic triad [active] 1138308005371 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 1138308005372 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 1138308005373 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1138308005374 catalytic residue [active] 1138308005375 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1138308005376 Flagellar regulator YcgR; Region: YcgR; pfam07317 1138308005377 PilZ domain; Region: PilZ; pfam07238 1138308005378 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1138308005379 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1138308005380 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 1138308005381 N-terminal plug; other site 1138308005382 ligand-binding site [chemical binding]; other site 1138308005383 trehalase; Provisional; Region: treA; PRK13271 1138308005384 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 1138308005385 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 1138308005386 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308005387 DNA-binding site [nucleotide binding]; DNA binding site 1138308005388 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 1138308005389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308005390 homodimer interface [polypeptide binding]; other site 1138308005391 catalytic residue [active] 1138308005392 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1138308005393 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1138308005394 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1138308005395 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 1138308005396 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1138308005397 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1138308005398 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1138308005399 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308005400 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 1138308005401 hypothetical protein; Provisional; Region: PRK10396 1138308005402 yecA family protein; Region: ygfB_yecA; TIGR02292 1138308005403 SEC-C motif; Region: SEC-C; pfam02810 1138308005404 GTP-binding protein YchF; Reviewed; Region: PRK09601 1138308005405 YchF GTPase; Region: YchF; cd01900 1138308005406 G1 box; other site 1138308005407 GTP/Mg2+ binding site [chemical binding]; other site 1138308005408 Switch I region; other site 1138308005409 G2 box; other site 1138308005410 Switch II region; other site 1138308005411 G3 box; other site 1138308005412 G4 box; other site 1138308005413 G5 box; other site 1138308005414 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 1138308005415 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 1138308005416 putative active site [active] 1138308005417 catalytic residue [active] 1138308005418 hypothetical protein; Provisional; Region: PRK10692 1138308005419 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 1138308005420 DNA binding residues [nucleotide binding] 1138308005421 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1138308005422 putative dimer interface [polypeptide binding]; other site 1138308005423 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1138308005424 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1138308005425 putative transporter; Provisional; Region: PRK11660 1138308005426 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1138308005427 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1138308005428 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 1138308005429 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1138308005430 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1138308005431 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1138308005432 active site 1138308005433 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1138308005434 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1138308005435 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1138308005436 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1138308005437 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1138308005438 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1138308005439 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1138308005440 tRNA; other site 1138308005441 putative tRNA binding site [nucleotide binding]; other site 1138308005442 putative NADP binding site [chemical binding]; other site 1138308005443 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1138308005444 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1138308005445 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1138308005446 RF-1 domain; Region: RF-1; pfam00472 1138308005447 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1138308005448 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 1138308005449 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 1138308005450 hypothetical protein; Provisional; Region: PRK10941 1138308005451 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1138308005452 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1138308005453 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1138308005454 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 1138308005455 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1138308005456 cation transport regulator; Reviewed; Region: chaB; PRK09582 1138308005457 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1138308005458 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 1138308005459 putative active site pocket [active] 1138308005460 dimerization interface [polypeptide binding]; other site 1138308005461 putative catalytic residue [active] 1138308005462 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1138308005463 Cache domain; Region: Cache_1; pfam02743 1138308005464 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1138308005465 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 1138308005466 dimerization interface [polypeptide binding]; other site 1138308005467 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308005468 dimer interface [polypeptide binding]; other site 1138308005469 putative CheW interface [polypeptide binding]; other site 1138308005470 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1138308005471 Nitrate and nitrite sensing; Region: NIT; pfam08376 1138308005472 ANTAR domain; Region: ANTAR; pfam03861 1138308005473 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1138308005474 NMT1-like family; Region: NMT1_2; pfam13379 1138308005475 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1138308005476 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 1138308005477 dimer interface [polypeptide binding]; other site 1138308005478 conserved gate region; other site 1138308005479 putative PBP binding loops; other site 1138308005480 ABC-ATPase subunit interface; other site 1138308005481 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1138308005482 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1138308005483 Walker A/P-loop; other site 1138308005484 ATP binding site [chemical binding]; other site 1138308005485 Q-loop/lid; other site 1138308005486 ABC transporter signature motif; other site 1138308005487 Walker B; other site 1138308005488 D-loop; other site 1138308005489 H-loop/switch region; other site 1138308005490 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1138308005491 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308005492 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1138308005493 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1138308005494 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308005495 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1138308005496 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1138308005497 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1138308005498 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 1138308005499 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1138308005500 [4Fe-4S] binding site [ion binding]; other site 1138308005501 molybdopterin cofactor binding site; other site 1138308005502 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 1138308005503 molybdopterin cofactor binding site; other site 1138308005504 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1138308005505 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1138308005506 substrate binding site [chemical binding]; other site 1138308005507 putative invasin; Provisional; Region: PRK10177 1138308005508 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1138308005509 transcriptional regulator NarL; Provisional; Region: PRK10651 1138308005510 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 1138308005511 active site 1138308005512 phosphorylation site [posttranslational modification] 1138308005513 intermolecular recognition site; other site 1138308005514 dimerization interface [polypeptide binding]; other site 1138308005515 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 1138308005516 DNA binding residues [nucleotide binding] 1138308005517 dimerization interface [polypeptide binding]; other site 1138308005518 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 1138308005519 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1138308005520 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 1138308005521 dimerization interface [polypeptide binding]; other site 1138308005522 Histidine kinase; Region: HisKA_3; pfam07730 1138308005523 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 1138308005524 ATP binding site [chemical binding]; other site 1138308005525 Mg2+ binding site [ion binding]; other site 1138308005526 G-X-G motif; other site 1138308005527 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1138308005528 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1138308005529 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1138308005530 [4Fe-4S] binding site [ion binding]; other site 1138308005531 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 1138308005532 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 1138308005533 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 1138308005534 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1138308005535 molybdopterin cofactor binding site; other site 1138308005536 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1138308005537 4Fe-4S binding domain; Region: Fer4; cl02805 1138308005538 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1138308005539 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 1138308005540 Cupin; Region: Cupin_6; pfam12852 1138308005541 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308005542 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1138308005543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308005544 short chain dehydrogenase; Provisional; Region: PRK06482 1138308005545 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1138308005546 NADP binding site [chemical binding]; other site 1138308005547 active site 1138308005548 steroid binding site; other site 1138308005549 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1138308005550 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1138308005551 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1138308005552 putative active site [active] 1138308005553 putative substrate binding site [chemical binding]; other site 1138308005554 putative cosubstrate binding site; other site 1138308005555 catalytic site [active] 1138308005556 hypothetical protein; Provisional; Region: PRK01617 1138308005557 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 1138308005558 active site 1138308005559 response regulator of RpoS; Provisional; Region: PRK10693 1138308005560 phosphorylation site [posttranslational modification] 1138308005561 intermolecular recognition site; other site 1138308005562 dimerization interface [polypeptide binding]; other site 1138308005563 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1138308005564 active site 1138308005565 tetramer interface; other site 1138308005566 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1138308005567 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1138308005568 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1138308005569 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1138308005570 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1138308005571 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1138308005572 putative NAD(P) binding site [chemical binding]; other site 1138308005573 active site 1138308005574 putative substrate binding site [chemical binding]; other site 1138308005575 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 1138308005576 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1138308005577 thymidine kinase; Provisional; Region: PRK04296 1138308005578 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1138308005579 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1138308005580 putative catalytic cysteine [active] 1138308005581 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1138308005582 putative active site [active] 1138308005583 metal binding site [ion binding]; metal-binding site 1138308005584 hypothetical protein; Provisional; Region: PRK11111 1138308005585 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1138308005586 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1138308005587 peptide binding site [polypeptide binding]; other site 1138308005588 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1138308005589 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 1138308005590 dimer interface [polypeptide binding]; other site 1138308005591 conserved gate region; other site 1138308005592 putative PBP binding loops; other site 1138308005593 ABC-ATPase subunit interface; other site 1138308005594 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1138308005595 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1138308005596 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 1138308005597 dimer interface [polypeptide binding]; other site 1138308005598 conserved gate region; other site 1138308005599 putative PBP binding loops; other site 1138308005600 ABC-ATPase subunit interface; other site 1138308005601 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1138308005602 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308005603 Walker A/P-loop; other site 1138308005604 ATP binding site [chemical binding]; other site 1138308005605 Q-loop/lid; other site 1138308005606 ABC transporter signature motif; other site 1138308005607 Walker B; other site 1138308005608 D-loop; other site 1138308005609 H-loop/switch region; other site 1138308005610 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1138308005611 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1138308005612 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308005613 Walker A/P-loop; other site 1138308005614 ATP binding site [chemical binding]; other site 1138308005615 Q-loop/lid; other site 1138308005616 ABC transporter signature motif; other site 1138308005617 Walker B; other site 1138308005618 D-loop; other site 1138308005619 H-loop/switch region; other site 1138308005620 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1138308005621 Ion transport protein; Region: Ion_trans; pfam00520 1138308005622 Ion channel; Region: Ion_trans_2; pfam07885 1138308005623 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1138308005624 Double zinc ribbon; Region: DZR; pfam12773 1138308005625 dsDNA-mimic protein; Reviewed; Region: PRK05094 1138308005626 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1138308005627 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1138308005628 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 1138308005629 putative active site [active] 1138308005630 catalytic site [active] 1138308005631 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 1138308005632 putative active site [active] 1138308005633 catalytic site [active] 1138308005634 YciI-like protein; Reviewed; Region: PRK11370 1138308005635 transport protein TonB; Provisional; Region: PRK10819 1138308005636 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1138308005637 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 1138308005638 outer membrane receptor FepA; Provisional; Region: PRK13528 1138308005639 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 1138308005640 N-terminal plug; other site 1138308005641 ligand-binding site [chemical binding]; other site 1138308005642 intracellular septation protein A; Reviewed; Region: PRK00259 1138308005643 hypothetical protein; Provisional; Region: PRK02868 1138308005644 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1138308005645 outer membrane protein W; Provisional; Region: PRK10959 1138308005646 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1138308005647 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1138308005648 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 1138308005649 substrate binding site [chemical binding]; other site 1138308005650 active site 1138308005651 catalytic residues [active] 1138308005652 heterodimer interface [polypeptide binding]; other site 1138308005653 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1138308005654 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 1138308005655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308005656 catalytic residue [active] 1138308005657 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1138308005658 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 1138308005659 active site 1138308005660 ribulose/triose binding site [chemical binding]; other site 1138308005661 phosphate binding site [ion binding]; other site 1138308005662 substrate (anthranilate) binding pocket [chemical binding]; other site 1138308005663 product (indole) binding pocket [chemical binding]; other site 1138308005664 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 1138308005665 active site 1138308005666 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 1138308005667 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1138308005668 glutamine binding [chemical binding]; other site 1138308005669 catalytic triad [active] 1138308005670 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1138308005671 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1138308005672 anthranilate synthase component I; Provisional; Region: PRK13564 1138308005673 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1138308005674 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1138308005675 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1138308005676 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1138308005677 active site 1138308005678 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1138308005679 hypothetical protein; Provisional; Region: PRK11630 1138308005680 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1138308005681 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 1138308005682 RNA binding surface [nucleotide binding]; other site 1138308005683 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1138308005684 probable active site [active] 1138308005685 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1138308005686 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1138308005687 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1138308005688 homodimer interface [polypeptide binding]; other site 1138308005689 Walker A motif; other site 1138308005690 ATP binding site [chemical binding]; other site 1138308005691 hydroxycobalamin binding site [chemical binding]; other site 1138308005692 Walker B motif; other site 1138308005693 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1138308005694 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 1138308005695 NADP binding site [chemical binding]; other site 1138308005696 homodimer interface [polypeptide binding]; other site 1138308005697 active site 1138308005698 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1138308005699 putative inner membrane peptidase; Provisional; Region: PRK11778 1138308005700 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1138308005701 tandem repeat interface [polypeptide binding]; other site 1138308005702 oligomer interface [polypeptide binding]; other site 1138308005703 active site residues [active] 1138308005704 hypothetical protein; Provisional; Region: PRK11037 1138308005705 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1138308005706 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1138308005707 active site 1138308005708 interdomain interaction site; other site 1138308005709 putative metal-binding site [ion binding]; other site 1138308005710 nucleotide binding site [chemical binding]; other site 1138308005711 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 1138308005712 domain I; other site 1138308005713 DNA binding groove [nucleotide binding] 1138308005714 phosphate binding site [ion binding]; other site 1138308005715 domain II; other site 1138308005716 domain III; other site 1138308005717 nucleotide binding site [chemical binding]; other site 1138308005718 catalytic site [active] 1138308005719 domain IV; other site 1138308005720 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1138308005721 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1138308005722 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1138308005723 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1138308005724 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1138308005725 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308005726 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 1138308005727 substrate binding site [chemical binding]; other site 1138308005728 putative dimerization interface [polypeptide binding]; other site 1138308005729 aconitate hydratase; Validated; Region: PRK09277 1138308005730 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1138308005731 substrate binding site [chemical binding]; other site 1138308005732 ligand binding site [chemical binding]; other site 1138308005733 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 1138308005734 substrate binding site [chemical binding]; other site 1138308005735 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1138308005736 dimerization interface [polypeptide binding]; other site 1138308005737 active site 1138308005738 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1138308005739 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1138308005740 active site 1138308005741 Predicted membrane protein [Function unknown]; Region: COG3771 1138308005742 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1138308005743 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 1138308005744 TPR motif; other site 1138308005745 binding surface 1138308005746 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 1138308005747 binding surface 1138308005748 TPR motif; other site 1138308005749 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 1138308005750 TPR motif; other site 1138308005751 binding surface 1138308005752 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 1138308005753 active site 1138308005754 dimer interface [polypeptide binding]; other site 1138308005755 translation initiation factor Sui1; Validated; Region: PRK06824 1138308005756 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1138308005757 putative rRNA binding site [nucleotide binding]; other site 1138308005758 lipoprotein; Provisional; Region: PRK10540 1138308005759 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1138308005760 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1138308005761 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1138308005762 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 1138308005763 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1138308005764 dimer interface [polypeptide binding]; other site 1138308005765 active site 1138308005766 glycine loop; other site 1138308005767 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1138308005768 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 1138308005769 FeS/SAM binding site; other site 1138308005770 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1138308005771 active site 1138308005772 intersubunit interactions; other site 1138308005773 catalytic residue [active] 1138308005774 hypothetical protein; Provisional; Region: PRK13658 1138308005775 enoyl-CoA hydratase; Validated; Region: PRK08788 1138308005776 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 1138308005777 substrate binding site [chemical binding]; other site 1138308005778 oxyanion hole (OAH) forming residues; other site 1138308005779 trimer interface [polypeptide binding]; other site 1138308005780 RNase II stability modulator; Provisional; Region: PRK10060 1138308005781 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 1138308005782 putative active site [active] 1138308005783 heme pocket [chemical binding]; other site 1138308005784 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308005785 metal binding site [ion binding]; metal-binding site 1138308005786 active site 1138308005787 I-site; other site 1138308005788 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 1138308005789 exoribonuclease II; Provisional; Region: PRK05054 1138308005790 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1138308005791 RNB domain; Region: RNB; pfam00773 1138308005792 S1 RNA binding domain; Region: S1; pfam00575 1138308005793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 1138308005794 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1138308005795 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1138308005796 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 1138308005797 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1138308005798 NAD binding site [chemical binding]; other site 1138308005799 homotetramer interface [polypeptide binding]; other site 1138308005800 homodimer interface [polypeptide binding]; other site 1138308005801 substrate binding site [chemical binding]; other site 1138308005802 active site 1138308005803 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 1138308005804 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308005805 Walker A/P-loop; other site 1138308005806 ATP binding site [chemical binding]; other site 1138308005807 Q-loop/lid; other site 1138308005808 ABC transporter signature motif; other site 1138308005809 Walker B; other site 1138308005810 D-loop; other site 1138308005811 H-loop/switch region; other site 1138308005812 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1138308005813 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 1138308005814 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308005815 Walker A/P-loop; other site 1138308005816 ATP binding site [chemical binding]; other site 1138308005817 Q-loop/lid; other site 1138308005818 ABC transporter signature motif; other site 1138308005819 Walker B; other site 1138308005820 D-loop; other site 1138308005821 H-loop/switch region; other site 1138308005822 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1138308005823 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 1138308005824 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1138308005825 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 1138308005826 dimer interface [polypeptide binding]; other site 1138308005827 conserved gate region; other site 1138308005828 putative PBP binding loops; other site 1138308005829 ABC-ATPase subunit interface; other site 1138308005830 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 1138308005831 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 1138308005832 dimer interface [polypeptide binding]; other site 1138308005833 conserved gate region; other site 1138308005834 putative PBP binding loops; other site 1138308005835 ABC-ATPase subunit interface; other site 1138308005836 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1138308005837 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1138308005838 peptide binding site [polypeptide binding]; other site 1138308005839 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 1138308005840 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 1138308005841 Walker A motif; other site 1138308005842 ATP binding site [chemical binding]; other site 1138308005843 Walker B motif; other site 1138308005844 arginine finger; other site 1138308005845 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1138308005846 phage shock protein PspA; Provisional; Region: PRK10698 1138308005847 phage shock protein B; Provisional; Region: pspB; PRK09458 1138308005848 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 1138308005849 phage shock protein C; Region: phageshock_pspC; TIGR02978 1138308005850 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 1138308005851 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 1138308005852 sucrose phosphorylase; Provisional; Region: PRK13840 1138308005853 active site 1138308005854 homodimer interface [polypeptide binding]; other site 1138308005855 catalytic site [active] 1138308005856 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1138308005857 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1138308005858 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1138308005859 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1138308005860 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 1138308005861 dimer interface [polypeptide binding]; other site 1138308005862 conserved gate region; other site 1138308005863 putative PBP binding loops; other site 1138308005864 ABC-ATPase subunit interface; other site 1138308005865 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1138308005866 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 1138308005867 dimer interface [polypeptide binding]; other site 1138308005868 conserved gate region; other site 1138308005869 putative PBP binding loops; other site 1138308005870 ABC-ATPase subunit interface; other site 1138308005871 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1138308005872 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 1138308005873 putative NAD(P) binding site [chemical binding]; other site 1138308005874 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1138308005875 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1138308005876 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1138308005877 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1138308005878 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1138308005879 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1138308005880 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1138308005881 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1138308005882 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 1138308005883 motif II; other site 1138308005884 potential frameshift: common BLAST hit: gi|260598099|ref|YP_003210670.1| ABC transporter ATP-binding protein YcjV 1138308005885 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308005886 Walker A/P-loop; other site 1138308005887 ATP binding site [chemical binding]; other site 1138308005888 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308005889 Q-loop/lid; other site 1138308005890 ABC transporter signature motif; other site 1138308005891 Walker B; other site 1138308005892 D-loop; other site 1138308005893 H-loop/switch region; other site 1138308005894 TOBE domain; Region: TOBE_2; pfam08402 1138308005895 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308005896 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308005897 DNA binding site [nucleotide binding] 1138308005898 domain linker motif; other site 1138308005899 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 1138308005900 putative dimerization interface [polypeptide binding]; other site 1138308005901 putative ligand binding site [chemical binding]; other site 1138308005902 Predicted ATPase [General function prediction only]; Region: COG3106 1138308005903 hypothetical protein; Provisional; Region: PRK05415 1138308005904 Domain of unknown function (DUF697); Region: DUF697; cl12064 1138308005905 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 1138308005906 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1138308005907 putative aromatic amino acid binding site; other site 1138308005908 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 1138308005909 putative active site [active] 1138308005910 heme pocket [chemical binding]; other site 1138308005911 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 1138308005912 Walker A motif; other site 1138308005913 ATP binding site [chemical binding]; other site 1138308005914 Walker B motif; other site 1138308005915 arginine finger; other site 1138308005916 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1138308005917 dimer interface [polypeptide binding]; other site 1138308005918 catalytic triad [active] 1138308005919 peroxidatic and resolving cysteines [active] 1138308005920 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 1138308005921 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1138308005922 active site 1138308005923 murein peptide amidase A; Provisional; Region: PRK10602 1138308005924 active site 1138308005925 Zn binding site [ion binding]; other site 1138308005926 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1138308005927 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1138308005928 peptide binding site [polypeptide binding]; other site 1138308005929 anti-adapter protein IraM; Provisional; Region: PRK09919 1138308005930 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 1138308005931 General stress protein [General function prediction only]; Region: GsiB; COG3729 1138308005932 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1138308005933 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 1138308005934 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 1138308005935 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1138308005936 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1138308005937 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1138308005938 Cl binding site [ion binding]; other site 1138308005939 oligomer interface [polypeptide binding]; other site 1138308005940 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1138308005941 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 1138308005942 Ligand Binding Site [chemical binding]; other site 1138308005943 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1138308005944 putative catalytic site [active] 1138308005945 putative metal binding site [ion binding]; other site 1138308005946 putative phosphate binding site [ion binding]; other site 1138308005947 short chain dehydrogenase; Provisional; Region: PRK06701 1138308005948 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1138308005949 NAD binding site [chemical binding]; other site 1138308005950 metal binding site [ion binding]; metal-binding site 1138308005951 active site 1138308005952 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1138308005953 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1138308005954 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1138308005955 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 1138308005956 Walker A motif; other site 1138308005957 ATP binding site [chemical binding]; other site 1138308005958 Walker B motif; other site 1138308005959 arginine finger; other site 1138308005960 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1138308005961 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1138308005962 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1138308005963 NAD(P) binding site [chemical binding]; other site 1138308005964 catalytic residues [active] 1138308005965 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1138308005966 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1138308005967 NAD binding site [chemical binding]; other site 1138308005968 substrate binding site [chemical binding]; other site 1138308005969 catalytic Zn binding site [ion binding]; other site 1138308005970 tetramer interface [polypeptide binding]; other site 1138308005971 structural Zn binding site [ion binding]; other site 1138308005972 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1138308005973 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 1138308005974 dimer interface [polypeptide binding]; other site 1138308005975 PYR/PP interface [polypeptide binding]; other site 1138308005976 TPP binding site [chemical binding]; other site 1138308005977 substrate binding site [chemical binding]; other site 1138308005978 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1138308005979 Domain of unknown function; Region: EKR; smart00890 1138308005980 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1138308005981 4Fe-4S binding domain; Region: Fer4; pfam00037 1138308005982 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1138308005983 TPP-binding site [chemical binding]; other site 1138308005984 dimer interface [polypeptide binding]; other site 1138308005985 META domain; Region: META; cl01245 1138308005986 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1138308005987 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1138308005988 putative ligand binding site [chemical binding]; other site 1138308005989 putative NAD binding site [chemical binding]; other site 1138308005990 catalytic site [active] 1138308005991 hypothetical protein; Provisional; Region: PRK10695 1138308005992 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1138308005993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 1138308005994 azoreductase; Reviewed; Region: PRK00170 1138308005995 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1138308005996 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1138308005997 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 1138308005998 ATP binding site [chemical binding]; other site 1138308005999 putative Mg++ binding site [ion binding]; other site 1138308006000 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 1138308006001 nucleotide binding region [chemical binding]; other site 1138308006002 ATP-binding site [chemical binding]; other site 1138308006003 Helicase associated domain (HA2); Region: HA2; pfam04408 1138308006004 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1138308006005 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1138308006006 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1138308006007 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 1138308006008 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1138308006009 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1138308006010 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308006011 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308006012 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 1138308006013 putative substrate translocation pore; other site 1138308006014 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1138308006015 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1138308006016 MarR family; Region: MarR_2; pfam12802 1138308006017 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308006018 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1138308006019 Coenzyme A binding pocket [chemical binding]; other site 1138308006020 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 1138308006021 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 1138308006022 dimer interface [polypeptide binding]; other site 1138308006023 Mn binding site [ion binding]; other site 1138308006024 K binding site [ion binding]; other site 1138308006025 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1138308006026 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 1138308006027 putative active site [active] 1138308006028 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1138308006029 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1138308006030 NAD binding site [chemical binding]; other site 1138308006031 catalytic residues [active] 1138308006032 substrate binding site [chemical binding]; other site 1138308006033 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1138308006034 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1138308006035 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 1138308006036 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 1138308006037 metabolite-proton symporter; Region: 2A0106; TIGR00883 1138308006038 putative substrate translocation pore; other site 1138308006039 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1138308006040 putative metal binding site [ion binding]; other site 1138308006041 putative homodimer interface [polypeptide binding]; other site 1138308006042 putative homotetramer interface [polypeptide binding]; other site 1138308006043 putative homodimer-homodimer interface [polypeptide binding]; other site 1138308006044 putative allosteric switch controlling residues; other site 1138308006045 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1138308006046 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1138308006047 substrate binding site [chemical binding]; other site 1138308006048 catalytic Zn binding site [ion binding]; other site 1138308006049 NAD binding site [chemical binding]; other site 1138308006050 structural Zn binding site [ion binding]; other site 1138308006051 dimer interface [polypeptide binding]; other site 1138308006052 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1138308006053 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1138308006054 dimer interface [polypeptide binding]; other site 1138308006055 ligand binding site [chemical binding]; other site 1138308006056 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 1138308006057 dimerization interface [polypeptide binding]; other site 1138308006058 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308006059 dimer interface [polypeptide binding]; other site 1138308006060 putative CheW interface [polypeptide binding]; other site 1138308006061 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 1138308006062 dimerization interface [polypeptide binding]; other site 1138308006063 metal binding site [ion binding]; metal-binding site 1138308006064 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1138308006065 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 1138308006066 FMN binding site [chemical binding]; other site 1138308006067 active site 1138308006068 substrate binding site [chemical binding]; other site 1138308006069 catalytic residue [active] 1138308006070 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1138308006071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308006072 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 1138308006073 dimerization interface [polypeptide binding]; other site 1138308006074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1138308006075 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1138308006076 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1138308006077 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 1138308006078 substrate binding pocket [chemical binding]; other site 1138308006079 catalytic triad [active] 1138308006080 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 1138308006081 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1138308006082 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1138308006083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308006084 Coenzyme A binding pocket [chemical binding]; other site 1138308006085 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 1138308006086 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 1138308006087 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; cd00208 1138308006088 putative trimer interface [polypeptide binding]; other site 1138308006089 putative CoA binding site [chemical binding]; other site 1138308006090 tellurite resistance protein TehB; Provisional; Region: PRK11207 1138308006091 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 1138308006092 S-adenosylmethionine binding site [chemical binding]; other site 1138308006093 potential frameshift: common BLAST hit: gi|260598025|ref|YP_003210596.1| lipoprotein YdcL 1138308006094 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1138308006095 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1138308006096 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1138308006097 benzoate transporter; Region: benE; TIGR00843 1138308006098 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1138308006099 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 1138308006100 non-specific DNA binding site [nucleotide binding]; other site 1138308006101 salt bridge; other site 1138308006102 sequence-specific DNA binding site [nucleotide binding]; other site 1138308006103 Cupin domain; Region: Cupin_2; pfam07883 1138308006104 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1138308006105 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 1138308006106 Peptidase family U32; Region: Peptidase_U32; pfam01136 1138308006107 Collagenase; Region: DUF3656; pfam12392 1138308006108 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1138308006109 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 1138308006110 Catalytic site [active] 1138308006111 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1138308006112 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1138308006113 active site 1138308006114 DNA binding site [nucleotide binding] 1138308006115 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1138308006116 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 1138308006117 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1138308006118 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 1138308006119 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1138308006120 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1138308006121 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1138308006122 active site 1138308006123 Zn binding site [ion binding]; other site 1138308006124 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1138308006125 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 1138308006126 putative substrate translocation pore; other site 1138308006127 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1138308006128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308006129 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 1138308006130 dimerization interface [polypeptide binding]; other site 1138308006131 substrate binding pocket [chemical binding]; other site 1138308006132 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1138308006133 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1138308006134 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1138308006135 putative dithiobiotin synthetase; Provisional; Region: PRK12374 1138308006136 AAA domain; Region: AAA_26; pfam13500 1138308006137 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1138308006138 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1138308006139 Walker A/P-loop; other site 1138308006140 ATP binding site [chemical binding]; other site 1138308006141 Q-loop/lid; other site 1138308006142 ABC transporter signature motif; other site 1138308006143 Walker B; other site 1138308006144 D-loop; other site 1138308006145 H-loop/switch region; other site 1138308006146 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 1138308006147 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 1138308006148 dimer interface [polypeptide binding]; other site 1138308006149 conserved gate region; other site 1138308006150 ABC-ATPase subunit interface; other site 1138308006151 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1138308006152 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1138308006153 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 1138308006154 putative PBP binding loops; other site 1138308006155 dimer interface [polypeptide binding]; other site 1138308006156 ABC-ATPase subunit interface; other site 1138308006157 GlpM protein; Region: GlpM; pfam06942 1138308006158 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 1138308006159 DMSO reductase anchor subunit [General function prediction only]; Region: DmsC; COG3302 1138308006160 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1138308006161 4Fe-4S binding domain; Region: Fer4; pfam00037 1138308006162 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 1138308006163 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1138308006164 putative [Fe4-S4] binding site [ion binding]; other site 1138308006165 putative molybdopterin cofactor binding site [chemical binding]; other site 1138308006166 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1138308006167 putative molybdopterin cofactor binding site; other site 1138308006168 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1138308006169 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 1138308006170 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 1138308006171 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308006172 Coenzyme A binding pocket [chemical binding]; other site 1138308006173 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1138308006174 hypothetical protein; Provisional; Region: PRK13659 1138308006175 hypothetical protein; Provisional; Region: PRK02237 1138308006176 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 1138308006177 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 1138308006178 putative active site pocket [active] 1138308006179 putative metal binding site [ion binding]; other site 1138308006180 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 1138308006181 D-galactonate transporter; Region: 2A0114; TIGR00893 1138308006182 putative substrate translocation pore; other site 1138308006183 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1138308006184 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1138308006185 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1138308006186 YdfZ protein; Region: YdfZ; pfam14001 1138308006187 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1138308006188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308006189 DNA-binding site [nucleotide binding]; DNA binding site 1138308006190 FCD domain; Region: FCD; pfam07729 1138308006191 malonic semialdehyde reductase; Provisional; Region: PRK10538 1138308006192 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1138308006193 putative NAD(P) binding site [chemical binding]; other site 1138308006194 homodimer interface [polypeptide binding]; other site 1138308006195 homotetramer interface [polypeptide binding]; other site 1138308006196 active site 1138308006197 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 1138308006198 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1138308006199 active site 1138308006200 Zn binding site [ion binding]; other site 1138308006201 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1138308006202 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1138308006203 DNA binding residues [nucleotide binding] 1138308006204 dimer interface [polypeptide binding]; other site 1138308006205 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1138308006206 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 1138308006207 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 1138308006208 substrate binding site [chemical binding]; other site 1138308006209 THF binding site; other site 1138308006210 zinc-binding site [ion binding]; other site 1138308006211 allophanate hydrolase; Provisional; Region: PRK08186 1138308006212 Amidase; Region: Amidase; pfam01425 1138308006213 urea carboxylase; Region: urea_carbox; TIGR02712 1138308006214 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1138308006215 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1138308006216 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1138308006217 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1138308006218 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1138308006219 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 1138308006220 carboxyltransferase (CT) interaction site; other site 1138308006221 biotinylation site [posttranslational modification]; other site 1138308006222 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308006223 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1138308006224 DNA-binding site [nucleotide binding]; DNA binding site 1138308006225 FCD domain; Region: FCD; pfam07729 1138308006226 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1138308006227 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1138308006228 putative ligand binding site [chemical binding]; other site 1138308006229 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 1138308006230 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1138308006231 TM-ABC transporter signature motif; other site 1138308006232 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1138308006233 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 1138308006234 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 1138308006235 TM-ABC transporter signature motif; other site 1138308006236 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1138308006237 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1138308006238 Walker A/P-loop; other site 1138308006239 ATP binding site [chemical binding]; other site 1138308006240 Q-loop/lid; other site 1138308006241 ABC transporter signature motif; other site 1138308006242 Walker B; other site 1138308006243 D-loop; other site 1138308006244 H-loop/switch region; other site 1138308006245 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1138308006246 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1138308006247 Walker A/P-loop; other site 1138308006248 ATP binding site [chemical binding]; other site 1138308006249 Q-loop/lid; other site 1138308006250 ABC transporter signature motif; other site 1138308006251 Walker B; other site 1138308006252 D-loop; other site 1138308006253 H-loop/switch region; other site 1138308006254 putative transporter; Provisional; Region: PRK10054 1138308006255 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 1138308006256 putative substrate translocation pore; other site 1138308006257 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1138308006258 EamA-like transporter family; Region: EamA; pfam00892 1138308006259 MarB protein; Region: MarB; pfam13999 1138308006260 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 1138308006261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308006262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308006263 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 1138308006264 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1138308006265 putative arabinose transporter; Provisional; Region: PRK03545 1138308006266 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 1138308006267 putative substrate translocation pore; other site 1138308006268 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1138308006269 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1138308006270 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1138308006271 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1138308006272 NAD binding site [chemical binding]; other site 1138308006273 dimer interface [polypeptide binding]; other site 1138308006274 substrate binding site [chemical binding]; other site 1138308006275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308006276 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1138308006277 Coenzyme A binding pocket [chemical binding]; other site 1138308006278 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308006279 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308006280 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 1138308006281 putative dimerization interface [polypeptide binding]; other site 1138308006282 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1138308006283 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1138308006284 NAD(P) binding site [chemical binding]; other site 1138308006285 catalytic residues [active] 1138308006286 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1138308006287 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1138308006288 dimer interface [polypeptide binding]; other site 1138308006289 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 1138308006290 dimerization interface [polypeptide binding]; other site 1138308006291 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308006292 dimer interface [polypeptide binding]; other site 1138308006293 putative CheW interface [polypeptide binding]; other site 1138308006294 glutaminase; Provisional; Region: PRK00971 1138308006295 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1138308006296 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 1138308006297 MASE1; Region: MASE1; cl17823 1138308006298 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308006299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308006300 metal binding site [ion binding]; metal-binding site 1138308006301 active site 1138308006302 I-site; other site 1138308006303 MASE2 domain; Region: MASE2; pfam05230 1138308006304 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308006305 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308006306 metal binding site [ion binding]; metal-binding site 1138308006307 active site 1138308006308 I-site; other site 1138308006309 GAF domain; Region: GAF; pfam01590 1138308006310 GAF domain; Region: GAF_2; pfam13185 1138308006311 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308006312 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308006313 metal binding site [ion binding]; metal-binding site 1138308006314 active site 1138308006315 I-site; other site 1138308006316 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308006317 Coenzyme A binding pocket [chemical binding]; other site 1138308006318 altronate oxidoreductase; Provisional; Region: PRK03643 1138308006319 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1138308006320 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1138308006321 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1138308006322 active site 1138308006323 catalytic triad [active] 1138308006324 oxyanion hole [active] 1138308006325 Autotransporter beta-domain; Region: Autotransporter; cl17461 1138308006326 trehalase; Provisional; Region: treF; PRK13270 1138308006327 Trehalase; Region: Trehalase; cl17346 1138308006328 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1138308006329 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1138308006330 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1138308006331 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1138308006332 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 1138308006333 putative active site [active] 1138308006334 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1138308006335 heme pocket [chemical binding]; other site 1138308006336 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 1138308006337 dimer interface [polypeptide binding]; other site 1138308006338 phosphorylation site [posttranslational modification] 1138308006339 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 1138308006340 ATP binding site [chemical binding]; other site 1138308006341 Mg2+ binding site [ion binding]; other site 1138308006342 G-X-G motif; other site 1138308006343 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1138308006344 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 1138308006345 active site 1138308006346 phosphorylation site [posttranslational modification] 1138308006347 intermolecular recognition site; other site 1138308006348 dimerization interface [polypeptide binding]; other site 1138308006349 Response regulator receiver domain; Region: Response_reg; pfam00072 1138308006350 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 1138308006351 active site 1138308006352 phosphorylation site [posttranslational modification] 1138308006353 intermolecular recognition site; other site 1138308006354 dimerization interface [polypeptide binding]; other site 1138308006355 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1138308006356 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1138308006357 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1138308006358 potential frameshift: common BLAST hit: gi|206576278|ref|YP_002238906.1| glycosyl transferase group 2 family protein 1138308006359 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1138308006360 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1138308006361 active site 1138308006362 OpgC protein; Region: OpgC_C; cl17858 1138308006363 OpgC protein; Region: OpgC_C; cl17858 1138308006364 Response regulator receiver domain; Region: Response_reg; pfam00072 1138308006365 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 1138308006366 active site 1138308006367 phosphorylation site [posttranslational modification] 1138308006368 intermolecular recognition site; other site 1138308006369 dimerization interface [polypeptide binding]; other site 1138308006370 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1138308006371 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1138308006372 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 1138308006373 anti sigma factor interaction site; other site 1138308006374 regulatory phosphorylation site [posttranslational modification]; other site 1138308006375 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1138308006376 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 1138308006377 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1138308006378 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 1138308006379 non-specific DNA binding site [nucleotide binding]; other site 1138308006380 salt bridge; other site 1138308006381 sequence-specific DNA binding site [nucleotide binding]; other site 1138308006382 Cupin domain; Region: Cupin_2; pfam07883 1138308006383 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1138308006384 B3/4 domain; Region: B3_4; pfam03483 1138308006385 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1138308006386 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 1138308006387 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1138308006388 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 1138308006389 putative substrate translocation pore; other site 1138308006390 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308006391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308006392 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 1138308006393 putative effector binding pocket; other site 1138308006394 dimerization interface [polypeptide binding]; other site 1138308006395 Serine hydrolase; Region: Ser_hydrolase; cl17834 1138308006396 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1138308006397 NlpC/P60 family; Region: NLPC_P60; pfam00877 1138308006398 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1138308006399 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1138308006400 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1138308006401 EAL domain; Region: EAL; pfam00563 1138308006402 UV-endonuclease UvdE; Region: UvdE; cl10036 1138308006403 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1138308006404 RHS Repeat; Region: RHS_repeat; pfam05593 1138308006405 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1138308006406 RHS Repeat; Region: RHS_repeat; cl11982 1138308006407 RHS Repeat; Region: RHS_repeat; cl11982 1138308006408 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1138308006409 RHS protein; Region: RHS; pfam03527 1138308006410 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1138308006411 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1138308006412 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1138308006413 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1138308006414 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1138308006415 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1138308006416 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1138308006417 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308006418 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1138308006419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308006420 NAD(P) binding site [chemical binding]; other site 1138308006421 active site 1138308006422 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 1138308006423 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1138308006424 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1138308006425 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1138308006426 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1138308006427 classical (c) SDRs; Region: SDR_c; cd05233 1138308006428 NAD(P) binding site [chemical binding]; other site 1138308006429 active site 1138308006430 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1138308006431 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1138308006432 putative NAD(P) binding site [chemical binding]; other site 1138308006433 putative substrate binding site [chemical binding]; other site 1138308006434 catalytic Zn binding site [ion binding]; other site 1138308006435 structural Zn binding site [ion binding]; other site 1138308006436 dimer interface [polypeptide binding]; other site 1138308006437 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1138308006438 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1138308006439 Cupin; Region: Cupin_6; pfam12852 1138308006440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308006441 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1138308006442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308006443 N-acetyltransferase; Region: Acetyltransf_2; cl00949 1138308006444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 1138308006445 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1138308006446 dimanganese center [ion binding]; other site 1138308006447 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 1138308006448 active site 1 [active] 1138308006449 dimer interface [polypeptide binding]; other site 1138308006450 hexamer interface [polypeptide binding]; other site 1138308006451 active site 2 [active] 1138308006452 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1138308006453 dimer interface [polypeptide binding]; other site 1138308006454 FMN binding site [chemical binding]; other site 1138308006455 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1138308006456 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1138308006457 L-asparagine permease; Provisional; Region: PRK15049 1138308006458 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1138308006459 NMT1-like family; Region: NMT1_2; pfam13379 1138308006460 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1138308006461 substrate binding pocket [chemical binding]; other site 1138308006462 membrane-bound complex binding site; other site 1138308006463 hinge residues; other site 1138308006464 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1138308006465 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 1138308006466 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1138308006467 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1138308006468 Walker A/P-loop; other site 1138308006469 ATP binding site [chemical binding]; other site 1138308006470 Q-loop/lid; other site 1138308006471 ABC transporter signature motif; other site 1138308006472 Walker B; other site 1138308006473 D-loop; other site 1138308006474 H-loop/switch region; other site 1138308006475 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1138308006476 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 1138308006477 dimer interface [polypeptide binding]; other site 1138308006478 ABC-ATPase subunit interface; other site 1138308006479 putative PBP binding loops; other site 1138308006480 PQQ-like domain; Region: PQQ_2; pfam13360 1138308006481 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1138308006482 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1138308006483 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 1138308006484 N-terminal plug; other site 1138308006485 ligand-binding site [chemical binding]; other site 1138308006486 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1138308006487 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 1138308006488 non-specific DNA binding site [nucleotide binding]; other site 1138308006489 salt bridge; other site 1138308006490 sequence-specific DNA binding site [nucleotide binding]; other site 1138308006491 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1138308006492 trehalose synthase; Region: treS_nterm; TIGR02456 1138308006493 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1138308006494 active site 1138308006495 catalytic site [active] 1138308006496 short chain dehydrogenase; Provisional; Region: PRK07109 1138308006497 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1138308006498 putative NAD(P) binding site [chemical binding]; other site 1138308006499 active site 1138308006500 HAMP domain; Region: HAMP; pfam00672 1138308006501 dimerization interface [polypeptide binding]; other site 1138308006502 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1138308006503 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308006504 dimer interface [polypeptide binding]; other site 1138308006505 putative CheW interface [polypeptide binding]; other site 1138308006506 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 1138308006507 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308006508 DNA-binding site [nucleotide binding]; DNA binding site 1138308006509 FCD domain; Region: FCD; pfam07729 1138308006510 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 1138308006511 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1138308006512 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1138308006513 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 1138308006514 dimer interface [polypeptide binding]; other site 1138308006515 conserved gate region; other site 1138308006516 putative PBP binding loops; other site 1138308006517 ABC-ATPase subunit interface; other site 1138308006518 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1138308006519 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 1138308006520 dimer interface [polypeptide binding]; other site 1138308006521 conserved gate region; other site 1138308006522 putative PBP binding loops; other site 1138308006523 ABC-ATPase subunit interface; other site 1138308006524 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1138308006525 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1138308006526 metal binding site [ion binding]; metal-binding site 1138308006527 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 1138308006528 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1138308006529 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1138308006530 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308006531 Walker A/P-loop; other site 1138308006532 ATP binding site [chemical binding]; other site 1138308006533 Q-loop/lid; other site 1138308006534 ABC transporter signature motif; other site 1138308006535 Walker B; other site 1138308006536 D-loop; other site 1138308006537 H-loop/switch region; other site 1138308006538 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308006539 Walker A/P-loop; other site 1138308006540 ATP binding site [chemical binding]; other site 1138308006541 Q-loop/lid; other site 1138308006542 ABC transporter signature motif; other site 1138308006543 Walker B; other site 1138308006544 D-loop; other site 1138308006545 H-loop/switch region; other site 1138308006546 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1138308006547 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1138308006548 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1138308006549 NAD(P) binding site [chemical binding]; other site 1138308006550 substrate binding site [chemical binding]; other site 1138308006551 dimer interface [polypeptide binding]; other site 1138308006552 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 1138308006553 non-specific DNA binding site [nucleotide binding]; other site 1138308006554 salt bridge; other site 1138308006555 sequence-specific DNA binding site [nucleotide binding]; other site 1138308006556 Cupin domain; Region: Cupin_2; pfam07883 1138308006557 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1138308006558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308006559 Coenzyme A binding pocket [chemical binding]; other site 1138308006560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1138308006561 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1138308006562 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1138308006563 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 1138308006564 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1138308006565 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1138308006566 peptide binding site [polypeptide binding]; other site 1138308006567 Virulence factor SrfB; Region: SrfB; pfam07520 1138308006568 Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]; Region: SrfC; COG4458 1138308006569 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1138308006570 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1138308006571 Metal-binding active site; metal-binding site 1138308006572 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1138308006573 Tar ligand binding domain homologue; Region: TarH; pfam02203 1138308006574 dimer interface [polypeptide binding]; other site 1138308006575 ligand binding site [chemical binding]; other site 1138308006576 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1138308006577 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 1138308006578 dimerization interface [polypeptide binding]; other site 1138308006579 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308006580 dimer interface [polypeptide binding]; other site 1138308006581 putative CheW interface [polypeptide binding]; other site 1138308006582 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1138308006583 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1138308006584 4Fe-4S binding domain; Region: Fer4; cl02805 1138308006585 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 1138308006586 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1138308006587 4Fe-4S binding domain; Region: Fer4; pfam00037 1138308006588 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 1138308006589 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1138308006590 putative [Fe4-S4] binding site [ion binding]; other site 1138308006591 putative molybdopterin cofactor binding site [chemical binding]; other site 1138308006592 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1138308006593 putative molybdopterin cofactor binding site; other site 1138308006594 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1138308006595 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1138308006596 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1138308006597 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1138308006598 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308006599 Coenzyme A binding pocket [chemical binding]; other site 1138308006600 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1138308006601 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1138308006602 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1138308006603 tetrameric interface [polypeptide binding]; other site 1138308006604 NAD binding site [chemical binding]; other site 1138308006605 catalytic residues [active] 1138308006606 substrate binding site [chemical binding]; other site 1138308006607 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1138308006608 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 1138308006609 putative PBP binding loops; other site 1138308006610 dimer interface [polypeptide binding]; other site 1138308006611 ABC-ATPase subunit interface; other site 1138308006612 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 1138308006613 dimer interface [polypeptide binding]; other site 1138308006614 conserved gate region; other site 1138308006615 putative PBP binding loops; other site 1138308006616 ABC-ATPase subunit interface; other site 1138308006617 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1138308006618 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308006619 Walker A/P-loop; other site 1138308006620 ATP binding site [chemical binding]; other site 1138308006621 Q-loop/lid; other site 1138308006622 ABC transporter signature motif; other site 1138308006623 Walker B; other site 1138308006624 D-loop; other site 1138308006625 H-loop/switch region; other site 1138308006626 TOBE domain; Region: TOBE_2; pfam08402 1138308006627 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1138308006628 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1138308006629 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 1138308006630 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308006631 DNA-binding site [nucleotide binding]; DNA binding site 1138308006632 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 1138308006633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308006634 homodimer interface [polypeptide binding]; other site 1138308006635 catalytic residue [active] 1138308006636 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1138308006637 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1138308006638 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1138308006639 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1138308006640 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1138308006641 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308006642 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1138308006643 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1138308006644 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1138308006645 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1138308006646 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 1138308006647 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1138308006648 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_15; cd08492 1138308006649 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1138308006650 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 1138308006651 dimer interface [polypeptide binding]; other site 1138308006652 conserved gate region; other site 1138308006653 putative PBP binding loops; other site 1138308006654 ABC-ATPase subunit interface; other site 1138308006655 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1138308006656 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 1138308006657 putative PBP binding loops; other site 1138308006658 dimer interface [polypeptide binding]; other site 1138308006659 ABC-ATPase subunit interface; other site 1138308006660 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1138308006661 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308006662 Walker A/P-loop; other site 1138308006663 ATP binding site [chemical binding]; other site 1138308006664 Q-loop/lid; other site 1138308006665 ABC transporter signature motif; other site 1138308006666 Walker B; other site 1138308006667 D-loop; other site 1138308006668 H-loop/switch region; other site 1138308006669 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308006670 Walker A/P-loop; other site 1138308006671 ATP binding site [chemical binding]; other site 1138308006672 Q-loop/lid; other site 1138308006673 ABC transporter signature motif; other site 1138308006674 Walker B; other site 1138308006675 D-loop; other site 1138308006676 H-loop/switch region; other site 1138308006677 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1138308006678 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 1138308006679 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1138308006680 CMD domain protein, Avi_7170 family; Region: CMD_Avi_7170; TIGR04029 1138308006681 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 1138308006682 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1138308006683 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1138308006684 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 1138308006685 active site 1138308006686 motif I; other site 1138308006687 motif II; other site 1138308006688 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 1138308006689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1138308006690 Smr domain; Region: Smr; pfam01713 1138308006691 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 1138308006692 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1138308006693 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 1138308006694 DNA binding site [nucleotide binding] 1138308006695 active site 1138308006696 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1138308006697 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 1138308006698 ligand binding site [chemical binding]; other site 1138308006699 flexible hinge region; other site 1138308006700 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 1138308006701 putative switch regulator; other site 1138308006702 non-specific DNA interactions [nucleotide binding]; other site 1138308006703 DNA binding site [nucleotide binding] 1138308006704 sequence specific DNA binding site [nucleotide binding]; other site 1138308006705 putative cAMP binding site [chemical binding]; other site 1138308006706 universal stress protein UspE; Provisional; Region: PRK11175 1138308006707 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 1138308006708 Ligand Binding Site [chemical binding]; other site 1138308006709 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 1138308006710 Ligand Binding Site [chemical binding]; other site 1138308006711 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1138308006712 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1138308006713 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1138308006714 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1138308006715 ligand binding site [chemical binding]; other site 1138308006716 homodimer interface [polypeptide binding]; other site 1138308006717 NAD(P) binding site [chemical binding]; other site 1138308006718 trimer interface B [polypeptide binding]; other site 1138308006719 trimer interface A [polypeptide binding]; other site 1138308006720 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1138308006721 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1138308006722 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1138308006723 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1138308006724 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1138308006725 dihydromonapterin reductase; Provisional; Region: PRK06483 1138308006726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308006727 NAD(P) binding site [chemical binding]; other site 1138308006728 active site 1138308006729 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1138308006730 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 1138308006731 active site 1138308006732 phosphorylation site [posttranslational modification] 1138308006733 intermolecular recognition site; other site 1138308006734 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 1138308006735 DNA binding site [nucleotide binding] 1138308006736 short chain dehydrogenase; Provisional; Region: PRK06500 1138308006737 classical (c) SDRs; Region: SDR_c; cd05233 1138308006738 NAD(P) binding site [chemical binding]; other site 1138308006739 active site 1138308006740 LysR family transcriptional regulator; Provisional; Region: PRK14997 1138308006741 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308006742 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 1138308006743 putative effector binding pocket; other site 1138308006744 putative dimerization interface [polypeptide binding]; other site 1138308006745 sensor protein RstB; Provisional; Region: PRK10604 1138308006746 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 1138308006747 dimerization interface [polypeptide binding]; other site 1138308006748 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 1138308006749 dimer interface [polypeptide binding]; other site 1138308006750 phosphorylation site [posttranslational modification] 1138308006751 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 1138308006752 ATP binding site [chemical binding]; other site 1138308006753 Mg2+ binding site [ion binding]; other site 1138308006754 G-X-G motif; other site 1138308006755 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 1138308006756 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1138308006757 Class II fumarases; Region: Fumarase_classII; cd01362 1138308006758 active site 1138308006759 tetramer interface [polypeptide binding]; other site 1138308006760 fumarate hydratase; Provisional; Region: PRK15389 1138308006761 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 1138308006762 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1138308006763 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1138308006764 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1138308006765 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1138308006766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1138308006767 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1138308006768 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308006769 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308006770 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308006771 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308006772 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1138308006773 PapC N-terminal domain; Region: PapC_N; pfam13954 1138308006774 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1138308006775 PapC C-terminal domain; Region: PapC_C; pfam13953 1138308006776 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 1138308006777 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1138308006778 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1138308006779 Fimbrial protein; Region: Fimbrial; cl01416 1138308006780 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 1138308006781 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308006782 DNA binding site [nucleotide binding] 1138308006783 domain linker motif; other site 1138308006784 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1138308006785 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 1138308006786 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1138308006787 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308006788 active site turn [active] 1138308006789 phosphorylation site [posttranslational modification] 1138308006790 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1138308006791 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 1138308006792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308006793 homodimer interface [polypeptide binding]; other site 1138308006794 catalytic residue [active] 1138308006795 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1138308006796 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 1138308006797 active site 1138308006798 purine riboside binding site [chemical binding]; other site 1138308006799 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1138308006800 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1138308006801 putative oxidoreductase; Provisional; Region: PRK11579 1138308006802 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1138308006803 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1138308006804 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 1138308006805 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 1138308006806 electron transport complex protein RsxA; Provisional; Region: PRK05151 1138308006807 ferredoxin; Provisional; Region: PRK08764 1138308006808 Putative Fe-S cluster; Region: FeS; pfam04060 1138308006809 4Fe-4S binding domain; Region: Fer4; cl02805 1138308006810 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 1138308006811 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1138308006812 SLBB domain; Region: SLBB; pfam10531 1138308006813 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 1138308006814 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1138308006815 electron transport complex protein RnfG; Validated; Region: PRK01908 1138308006816 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1138308006817 endonuclease III; Provisional; Region: PRK10702 1138308006818 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1138308006819 minor groove reading motif; other site 1138308006820 helix-hairpin-helix signature motif; other site 1138308006821 substrate binding pocket [chemical binding]; other site 1138308006822 active site 1138308006823 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1138308006824 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 1138308006825 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 1138308006826 putative substrate translocation pore; other site 1138308006827 POT family; Region: PTR2; pfam00854 1138308006828 glutathionine S-transferase; Provisional; Region: PRK10542 1138308006829 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 1138308006830 C-terminal domain interface [polypeptide binding]; other site 1138308006831 GSH binding site (G-site) [chemical binding]; other site 1138308006832 dimer interface [polypeptide binding]; other site 1138308006833 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1138308006834 dimer interface [polypeptide binding]; other site 1138308006835 N-terminal domain interface [polypeptide binding]; other site 1138308006836 substrate binding pocket (H-site) [chemical binding]; other site 1138308006837 pyridoxamine kinase; Validated; Region: PRK05756 1138308006838 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 1138308006839 dimer interface [polypeptide binding]; other site 1138308006840 pyridoxal binding site [chemical binding]; other site 1138308006841 ATP binding site [chemical binding]; other site 1138308006842 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1138308006843 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1138308006844 active site 1138308006845 HIGH motif; other site 1138308006846 dimer interface [polypeptide binding]; other site 1138308006847 KMSKS motif; other site 1138308006848 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 1138308006849 RNA binding surface [nucleotide binding]; other site 1138308006850 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1138308006851 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1138308006852 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1138308006853 lysozyme inhibitor; Provisional; Region: PRK11372 1138308006854 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1138308006855 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1138308006856 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1138308006857 transcriptional regulator SlyA; Provisional; Region: PRK03573 1138308006858 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1138308006859 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1138308006860 potential frameshift: common BLAST hit: gi|296102672|ref|YP_003612818.1| secretion protein HlyD family protein 1138308006861 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1138308006862 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308006863 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1138308006864 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308006865 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1138308006866 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1138308006867 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1138308006868 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 1138308006869 E-class dimer interface [polypeptide binding]; other site 1138308006870 P-class dimer interface [polypeptide binding]; other site 1138308006871 active site 1138308006872 Cu2+ binding site [ion binding]; other site 1138308006873 Zn2+ binding site [ion binding]; other site 1138308006874 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 1138308006875 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1138308006876 active site 1138308006877 catalytic tetrad [active] 1138308006878 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1138308006879 putative metal dependent hydrolase; Provisional; Region: PRK11598 1138308006880 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1138308006881 Sulfatase; Region: Sulfatase; pfam00884 1138308006882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1138308006883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308006884 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1138308006885 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 1138308006886 FMN binding site [chemical binding]; other site 1138308006887 active site 1138308006888 substrate binding site [chemical binding]; other site 1138308006889 catalytic residue [active] 1138308006890 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1138308006891 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1138308006892 dimer interface [polypeptide binding]; other site 1138308006893 active site 1138308006894 metal binding site [ion binding]; metal-binding site 1138308006895 glutathione binding site [chemical binding]; other site 1138308006896 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1138308006897 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1138308006898 dimer interface [polypeptide binding]; other site 1138308006899 catalytic site [active] 1138308006900 putative active site [active] 1138308006901 putative substrate binding site [chemical binding]; other site 1138308006902 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 1138308006903 putative GSH binding site [chemical binding]; other site 1138308006904 catalytic residues [active] 1138308006905 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1138308006906 NlpC/P60 family; Region: NLPC_P60; pfam00877 1138308006907 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 1138308006908 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1138308006909 putative substrate translocation pore; other site 1138308006910 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1138308006911 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308006912 DNA binding site [nucleotide binding] 1138308006913 domain linker motif; other site 1138308006914 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1138308006915 dimerization interface [polypeptide binding]; other site 1138308006916 ligand binding site [chemical binding]; other site 1138308006917 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1138308006918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308006919 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 1138308006920 dimerization interface [polypeptide binding]; other site 1138308006921 putative transporter; Provisional; Region: PRK11043 1138308006922 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 1138308006923 putative substrate translocation pore; other site 1138308006924 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1138308006925 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 1138308006926 S-adenosylmethionine binding site [chemical binding]; other site 1138308006927 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1138308006928 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1138308006929 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1138308006930 beta-galactosidase; Region: BGL; TIGR03356 1138308006931 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308006932 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308006933 DNA binding site [nucleotide binding] 1138308006934 domain linker motif; other site 1138308006935 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 1138308006936 dimerization interface [polypeptide binding]; other site 1138308006937 ligand binding site [chemical binding]; other site 1138308006938 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1138308006939 Lumazine binding domain; Region: Lum_binding; pfam00677 1138308006940 Lumazine binding domain; Region: Lum_binding; pfam00677 1138308006941 multidrug efflux protein; Reviewed; Region: PRK01766 1138308006942 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1138308006943 cation binding site [ion binding]; other site 1138308006944 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1138308006945 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1138308006946 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1138308006947 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1138308006948 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1138308006949 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1138308006950 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1138308006951 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1138308006952 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1138308006953 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 1138308006954 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1138308006955 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1138308006956 Protein of unknown function (DUF3561); Region: DUF3561; cl08142 1138308006957 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1138308006958 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1138308006959 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1138308006960 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1138308006961 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1138308006962 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1138308006963 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1138308006964 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1138308006965 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1138308006966 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1138308006967 ligand binding site [chemical binding]; other site 1138308006968 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1138308006969 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1138308006970 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1138308006971 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1138308006972 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1138308006973 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1138308006974 AAA domain; Region: AAA_28; pfam13521 1138308006975 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 1138308006976 Walker A motif; other site 1138308006977 ATP binding site [chemical binding]; other site 1138308006978 Walker B motif; other site 1138308006979 choline transport protein BetT; Provisional; Region: PRK09928 1138308006980 transcriptional regulator BetI; Validated; Region: PRK00767 1138308006981 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308006982 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1138308006983 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1138308006984 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1138308006985 tetrameric interface [polypeptide binding]; other site 1138308006986 NAD binding site [chemical binding]; other site 1138308006987 catalytic residues [active] 1138308006988 choline dehydrogenase; Validated; Region: PRK02106 1138308006989 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1138308006990 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1138308006991 Sigma-S stabilisation anti-adaptor protein; Region: Anti-adapt_IraP; pfam10796 1138308006992 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 1138308006993 putative substrate translocation pore; other site 1138308006994 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 1138308006995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308006996 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 1138308006997 putative substrate binding pocket [chemical binding]; other site 1138308006998 putative dimerization interface [polypeptide binding]; other site 1138308006999 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 1138308007000 molybdopterin cofactor binding site; other site 1138308007001 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_CT_Formate-Dh_H; cd02790 1138308007002 molybdopterin cofactor binding site; other site 1138308007003 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 1138308007004 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 1138308007005 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1138308007006 Acylphosphatase; Region: Acylphosphatase; pfam00708 1138308007007 HypF finger; Region: zf-HYPF; pfam07503 1138308007008 HypF finger; Region: zf-HYPF; pfam07503 1138308007009 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1138308007010 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1138308007011 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 1138308007012 [4Fe-4S] binding site [ion binding]; other site 1138308007013 molybdopterin cofactor binding site; other site 1138308007014 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_CT_Formate-Dh_H; cd02790 1138308007015 molybdopterin cofactor binding site; other site 1138308007016 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 1138308007017 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 1138308007018 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 1138308007019 nickel binding site [ion binding]; other site 1138308007020 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 1138308007021 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1138308007022 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 1138308007023 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 1138308007024 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 1138308007025 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1138308007026 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1138308007027 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1138308007028 NADH dehydrogenase; Region: NADHdh; cl00469 1138308007029 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 1138308007030 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1138308007031 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 1138308007032 Transcriptional repressor of hyc and hyp operons; Region: HycA_repressor; pfam11046 1138308007033 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 1138308007034 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 1138308007035 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 1138308007036 hydrogenase assembly chaperone; Provisional; Region: PRK10409 1138308007037 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1138308007038 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1138308007039 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 1138308007040 dimerization interface [polypeptide binding]; other site 1138308007041 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1138308007042 ATP binding site [chemical binding]; other site 1138308007043 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 1138308007044 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1138308007045 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1138308007046 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 1138308007047 Walker A motif; other site 1138308007048 ATP binding site [chemical binding]; other site 1138308007049 Walker B motif; other site 1138308007050 arginine finger; other site 1138308007051 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1138308007052 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1138308007053 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1138308007054 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 1138308007055 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1138308007056 catalytic triad [active] 1138308007057 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1138308007058 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 1138308007059 non-specific DNA binding site [nucleotide binding]; other site 1138308007060 salt bridge; other site 1138308007061 sequence-specific DNA binding site [nucleotide binding]; other site 1138308007062 Cupin domain; Region: Cupin_2; pfam07883 1138308007063 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1138308007064 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1138308007065 NAD(P) binding site [chemical binding]; other site 1138308007066 catalytic residues [active] 1138308007067 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1138308007068 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1138308007069 hypothetical protein; Provisional; Region: PRK09945 1138308007070 hypothetical protein; Provisional; Region: PRK09945 1138308007071 hypothetical protein; Provisional; Region: PRK09945 1138308007072 hypothetical protein; Provisional; Region: PRK09945 1138308007073 hypothetical protein; Provisional; Region: PRK09945 1138308007074 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 1138308007075 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1138308007076 Autotransporter beta-domain; Region: Autotransporter; smart00869 1138308007077 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 1138308007078 pyruvate kinase; Provisional; Region: PRK09206 1138308007079 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; cd00288 1138308007080 domain interfaces; other site 1138308007081 active site 1138308007082 murein lipoprotein; Provisional; Region: PRK15396 1138308007083 L,D-transpeptidase; Provisional; Region: PRK10190 1138308007084 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1138308007085 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1138308007086 cysteine desufuration protein SufE; Provisional; Region: PRK09296 1138308007087 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1138308007088 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1138308007089 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1138308007090 catalytic residue [active] 1138308007091 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 1138308007092 FeS assembly protein SufD; Region: sufD; TIGR01981 1138308007093 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 1138308007094 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1138308007095 Walker A/P-loop; other site 1138308007096 ATP binding site [chemical binding]; other site 1138308007097 Q-loop/lid; other site 1138308007098 ABC transporter signature motif; other site 1138308007099 Walker B; other site 1138308007100 D-loop; other site 1138308007101 H-loop/switch region; other site 1138308007102 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1138308007103 putative ABC transporter; Region: ycf24; CHL00085 1138308007104 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 1138308007105 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1138308007106 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1138308007107 catalytic core [active] 1138308007108 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1138308007109 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 1138308007110 CoenzymeA binding site [chemical binding]; other site 1138308007111 subunit interaction site [polypeptide binding]; other site 1138308007112 PHB binding site; other site 1138308007113 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1138308007114 FAD binding domain; Region: FAD_binding_4; pfam01565 1138308007115 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1138308007116 putative inner membrane protein; Provisional; Region: PRK10983 1138308007117 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1138308007118 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1138308007119 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1138308007120 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1138308007121 putative symporter YagG; Provisional; Region: PRK09669 1138308007122 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1138308007123 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1138308007124 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1138308007125 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1138308007126 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1138308007127 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1138308007128 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 1138308007129 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1138308007130 hypothetical protein; Validated; Region: PRK00029 1138308007131 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1138308007132 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; cl00290 1138308007133 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308007134 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308007135 DNA binding site [nucleotide binding] 1138308007136 domain linker motif; other site 1138308007137 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1138308007138 dimerization interface (closed form) [polypeptide binding]; other site 1138308007139 ligand binding site [chemical binding]; other site 1138308007140 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1138308007141 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1138308007142 NAD binding site [chemical binding]; other site 1138308007143 sugar binding site [chemical binding]; other site 1138308007144 divalent metal binding site [ion binding]; other site 1138308007145 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1138308007146 dimer interface [polypeptide binding]; other site 1138308007147 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1138308007148 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1138308007149 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 1138308007150 NlpC/P60 family; Region: NLPC_P60; pfam00877 1138308007151 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 1138308007152 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1138308007153 Walker A/P-loop; other site 1138308007154 ATP binding site [chemical binding]; other site 1138308007155 Q-loop/lid; other site 1138308007156 ABC transporter signature motif; other site 1138308007157 Walker B; other site 1138308007158 D-loop; other site 1138308007159 H-loop/switch region; other site 1138308007160 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 1138308007161 catalytic residues [active] 1138308007162 dimer interface [polypeptide binding]; other site 1138308007163 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1138308007164 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 1138308007165 dimer interface [polypeptide binding]; other site 1138308007166 putative PBP binding regions; other site 1138308007167 ABC-ATPase subunit interface; other site 1138308007168 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 1138308007169 IHF dimer interface [polypeptide binding]; other site 1138308007170 IHF - DNA interface [nucleotide binding]; other site 1138308007171 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1138308007172 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 1138308007173 putative tRNA-binding site [nucleotide binding]; other site 1138308007174 B3/4 domain; Region: B3_4; pfam03483 1138308007175 tRNA synthetase B5 domain; Region: B5; smart00874 1138308007176 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 1138308007177 dimer interface [polypeptide binding]; other site 1138308007178 motif 1; other site 1138308007179 motif 3; other site 1138308007180 motif 2; other site 1138308007181 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1138308007182 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1138308007183 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1138308007184 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 1138308007185 dimer interface [polypeptide binding]; other site 1138308007186 motif 1; other site 1138308007187 active site 1138308007188 motif 2; other site 1138308007189 motif 3; other site 1138308007190 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1138308007191 23S rRNA binding site [nucleotide binding]; other site 1138308007192 L21 binding site [polypeptide binding]; other site 1138308007193 L13 binding site [polypeptide binding]; other site 1138308007194 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1138308007195 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1138308007196 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1138308007197 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1138308007198 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1138308007199 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 1138308007200 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1138308007201 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 1138308007202 active site 1138308007203 dimer interface [polypeptide binding]; other site 1138308007204 motif 1; other site 1138308007205 motif 2; other site 1138308007206 motif 3; other site 1138308007207 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 1138308007208 anticodon binding site; other site 1138308007209 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1138308007210 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308007211 Coenzyme A binding pocket [chemical binding]; other site 1138308007212 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308007213 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308007214 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 1138308007215 dimerization interface [polypeptide binding]; other site 1138308007216 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1138308007217 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1138308007218 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1138308007219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308007220 Coenzyme A binding pocket [chemical binding]; other site 1138308007221 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 1138308007222 secondary substrate binding site; other site 1138308007223 primary substrate binding site; other site 1138308007224 inhibition loop; other site 1138308007225 dimerization interface [polypeptide binding]; other site 1138308007226 proline/glycine betaine transporter; Provisional; Region: PRK10642 1138308007227 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 1138308007228 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 1138308007229 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 1138308007230 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 1138308007231 6-phosphofructokinase 2; Provisional; Region: PRK10294 1138308007232 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1138308007233 putative substrate binding site [chemical binding]; other site 1138308007234 putative ATP binding site [chemical binding]; other site 1138308007235 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 1138308007236 Fructosamine kinase; Region: Fructosamin_kin; pfam03881 1138308007237 Phosphotransferase enzyme family; Region: APH; pfam01636 1138308007238 YniB-like protein; Region: YniB; pfam14002 1138308007239 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1138308007240 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1138308007241 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 1138308007242 motif II; other site 1138308007243 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 1138308007244 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1138308007245 NADP binding site [chemical binding]; other site 1138308007246 homodimer interface [polypeptide binding]; other site 1138308007247 active site 1138308007248 inner membrane protein; Provisional; Region: PRK11648 1138308007249 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1138308007250 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1138308007251 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1138308007252 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 1138308007253 sequence-specific DNA binding site [nucleotide binding]; other site 1138308007254 salt bridge; other site 1138308007255 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1138308007256 cell division modulator; Provisional; Region: PRK10113 1138308007257 hydroperoxidase II; Provisional; Region: katE; PRK11249 1138308007258 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1138308007259 tetramer interface [polypeptide binding]; other site 1138308007260 heme binding pocket [chemical binding]; other site 1138308007261 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1138308007262 domain interactions; other site 1138308007263 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1138308007264 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1138308007265 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 1138308007266 homodimer interface [polypeptide binding]; other site 1138308007267 NAD binding pocket [chemical binding]; other site 1138308007268 ATP binding pocket [chemical binding]; other site 1138308007269 Mg binding site [ion binding]; other site 1138308007270 active-site loop [active] 1138308007271 aromatic amino acid exporter; Provisional; Region: PRK11689 1138308007272 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 1138308007273 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1138308007274 GIY-YIG motif/motif A; other site 1138308007275 active site 1138308007276 catalytic site [active] 1138308007277 putative DNA binding site [nucleotide binding]; other site 1138308007278 metal binding site [ion binding]; metal-binding site 1138308007279 HutD; Region: HutD; cl01532 1138308007280 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1138308007281 dimer interface [polypeptide binding]; other site 1138308007282 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1138308007283 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1138308007284 putative active site [active] 1138308007285 Zn binding site [ion binding]; other site 1138308007286 succinylarginine dihydrolase; Provisional; Region: PRK13281 1138308007287 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1138308007288 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1138308007289 NAD(P) binding site [chemical binding]; other site 1138308007290 catalytic residues [active] 1138308007291 arginine succinyltransferase; Provisional; Region: PRK10456 1138308007292 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1138308007293 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 1138308007294 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 1138308007295 inhibitor-cofactor binding pocket; inhibition site 1138308007296 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308007297 catalytic residue [active] 1138308007298 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 1138308007299 putative catalytic site [active] 1138308007300 putative phosphate binding site [ion binding]; other site 1138308007301 active site 1138308007302 metal binding site A [ion binding]; metal-binding site 1138308007303 DNA binding site [nucleotide binding] 1138308007304 putative AP binding site [nucleotide binding]; other site 1138308007305 putative metal binding site B [ion binding]; other site 1138308007306 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 1138308007307 active site 1138308007308 8-oxo-dGMP binding site [chemical binding]; other site 1138308007309 nudix motif; other site 1138308007310 metal binding site [ion binding]; metal-binding site 1138308007311 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 1138308007312 DNA topoisomerase III; Provisional; Region: PRK07726 1138308007313 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 1138308007314 active site 1138308007315 putative interdomain interaction site [polypeptide binding]; other site 1138308007316 putative metal-binding site [ion binding]; other site 1138308007317 putative nucleotide binding site [chemical binding]; other site 1138308007318 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 1138308007319 domain I; other site 1138308007320 DNA binding groove [nucleotide binding] 1138308007321 phosphate binding site [ion binding]; other site 1138308007322 domain II; other site 1138308007323 domain III; other site 1138308007324 nucleotide binding site [chemical binding]; other site 1138308007325 catalytic site [active] 1138308007326 domain IV; other site 1138308007327 selenophosphate synthetase; Provisional; Region: PRK00943 1138308007328 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 1138308007329 dimerization interface [polypeptide binding]; other site 1138308007330 putative ATP binding site [chemical binding]; other site 1138308007331 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 1138308007332 putative FMN binding site [chemical binding]; other site 1138308007333 protease 4; Provisional; Region: PRK10949 1138308007334 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1138308007335 tandem repeat interface [polypeptide binding]; other site 1138308007336 oligomer interface [polypeptide binding]; other site 1138308007337 active site residues [active] 1138308007338 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 1138308007339 tandem repeat interface [polypeptide binding]; other site 1138308007340 oligomer interface [polypeptide binding]; other site 1138308007341 active site residues [active] 1138308007342 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1138308007343 active site 1138308007344 homodimer interface [polypeptide binding]; other site 1138308007345 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 1138308007346 Isochorismatase family; Region: Isochorismatase; pfam00857 1138308007347 catalytic triad [active] 1138308007348 metal binding site [ion binding]; metal-binding site 1138308007349 conserved cis-peptide bond; other site 1138308007350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 1138308007351 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1138308007352 SelR domain; Region: SelR; pfam01641 1138308007353 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1138308007354 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1138308007355 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1138308007356 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1138308007357 active site 1138308007358 phosphate binding residues; other site 1138308007359 catalytic residues [active] 1138308007360 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1138308007361 PrkA family serine protein kinase; Provisional; Region: PRK15455 1138308007362 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 1138308007363 Walker A motif; other site 1138308007364 ATP binding site [chemical binding]; other site 1138308007365 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1138308007366 hypothetical protein; Provisional; Region: PRK05325 1138308007367 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1138308007368 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 1138308007369 General stress protein [General function prediction only]; Region: GsiB; COG3729 1138308007370 YeaK is an uncharacterized Echerichia coli 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 trans-acting...; Region: YeaK; cd04336 1138308007371 putative deacylase active site [active] 1138308007372 Predicted membrane protein [Function unknown]; Region: COG2707 1138308007373 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1138308007374 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 1138308007375 hypothetical protein; Validated; Region: PRK06186 1138308007376 conserved cys residue [active] 1138308007377 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1138308007378 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1138308007379 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1138308007380 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1138308007381 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 1138308007382 active site 1138308007383 phosphorylation site [posttranslational modification] 1138308007384 intermolecular recognition site; other site 1138308007385 dimerization interface [polypeptide binding]; other site 1138308007386 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 1138308007387 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 1138308007388 DNA-binding site [nucleotide binding]; DNA binding site 1138308007389 RNA-binding motif; other site 1138308007390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1138308007391 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1138308007392 Tar ligand binding domain homologue; Region: TarH; pfam02203 1138308007393 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 1138308007394 dimerization interface [polypeptide binding]; other site 1138308007395 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1138308007396 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308007397 dimer interface [polypeptide binding]; other site 1138308007398 putative CheW interface [polypeptide binding]; other site 1138308007399 Phosphotransferase enzyme family; Region: APH; pfam01636 1138308007400 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1138308007401 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1138308007402 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 1138308007403 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1138308007404 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308007405 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308007406 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 1138308007407 putative effector binding pocket; other site 1138308007408 dimerization interface [polypeptide binding]; other site 1138308007409 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 1138308007410 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1138308007411 protein kinase; Region: PHA00451 1138308007412 isocitrate dehydrogenase; Validated; Region: PRK07362 1138308007413 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1138308007414 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1138308007415 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 1138308007416 probable active site [active] 1138308007417 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1138308007418 nudix motif; other site 1138308007419 Cache domain; Region: Cache_1; pfam02743 1138308007420 HAMP domain; Region: HAMP; pfam00672 1138308007421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308007422 dimer interface [polypeptide binding]; other site 1138308007423 putative CheW interface [polypeptide binding]; other site 1138308007424 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 1138308007425 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 1138308007426 putative lysogenization regulator; Reviewed; Region: PRK00218 1138308007427 adenylosuccinate lyase; Provisional; Region: PRK09285 1138308007428 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1138308007429 tetramer interface [polypeptide binding]; other site 1138308007430 active site 1138308007431 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1138308007432 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 1138308007433 active site 1138308007434 phosphorylation site [posttranslational modification] 1138308007435 intermolecular recognition site; other site 1138308007436 dimerization interface [polypeptide binding]; other site 1138308007437 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 1138308007438 DNA binding site [nucleotide binding] 1138308007439 sensor protein PhoQ; Provisional; Region: PRK10815 1138308007440 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 1138308007441 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1138308007442 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 1138308007443 ATP binding site [chemical binding]; other site 1138308007444 Mg2+ binding site [ion binding]; other site 1138308007445 G-X-G motif; other site 1138308007446 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1138308007447 Cupin-like domain; Region: Cupin_8; pfam13621 1138308007448 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 1138308007449 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1138308007450 metal binding site [ion binding]; metal-binding site 1138308007451 dimer interface [polypeptide binding]; other site 1138308007452 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1138308007453 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308007454 Walker A/P-loop; other site 1138308007455 ATP binding site [chemical binding]; other site 1138308007456 Q-loop/lid; other site 1138308007457 ABC transporter signature motif; other site 1138308007458 Walker B; other site 1138308007459 D-loop; other site 1138308007460 H-loop/switch region; other site 1138308007461 TOBE domain; Region: TOBE_2; pfam08402 1138308007462 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1138308007463 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 1138308007464 dimer interface [polypeptide binding]; other site 1138308007465 conserved gate region; other site 1138308007466 putative PBP binding loops; other site 1138308007467 ABC-ATPase subunit interface; other site 1138308007468 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1138308007469 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 1138308007470 dimer interface [polypeptide binding]; other site 1138308007471 conserved gate region; other site 1138308007472 putative PBP binding loops; other site 1138308007473 ABC-ATPase subunit interface; other site 1138308007474 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1138308007475 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1138308007476 NAD-dependent deacetylase; Provisional; Region: PRK00481 1138308007477 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1138308007478 NAD+ binding site [chemical binding]; other site 1138308007479 substrate binding site [chemical binding]; other site 1138308007480 Zn binding site [ion binding]; other site 1138308007481 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1138308007482 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1138308007483 nucleotide binding site [chemical binding]; other site 1138308007484 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1138308007485 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1138308007486 FtsX-like permease family; Region: FtsX; pfam02687 1138308007487 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 1138308007488 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1138308007489 Walker A/P-loop; other site 1138308007490 ATP binding site [chemical binding]; other site 1138308007491 Q-loop/lid; other site 1138308007492 ABC transporter signature motif; other site 1138308007493 Walker B; other site 1138308007494 D-loop; other site 1138308007495 H-loop/switch region; other site 1138308007496 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1138308007497 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1138308007498 FtsX-like permease family; Region: FtsX; pfam02687 1138308007499 transcription-repair coupling factor; Provisional; Region: PRK10689 1138308007500 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1138308007501 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 1138308007502 ATP binding site [chemical binding]; other site 1138308007503 putative Mg++ binding site [ion binding]; other site 1138308007504 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 1138308007505 nucleotide binding region [chemical binding]; other site 1138308007506 ATP-binding site [chemical binding]; other site 1138308007507 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1138308007508 L,D-transpeptidase; Provisional; Region: PRK10190 1138308007509 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1138308007510 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1138308007511 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1138308007512 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1138308007513 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308007514 hypothetical protein; Provisional; Region: PRK11280 1138308007515 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1138308007516 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308007517 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308007518 hypothetical protein; Provisional; Region: PRK04940 1138308007519 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1138308007520 beta-hexosaminidase; Provisional; Region: PRK05337 1138308007521 thiamine kinase; Region: ycfN_thiK; TIGR02721 1138308007522 thiamine kinase; Provisional; Region: thiK; PRK10271 1138308007523 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 1138308007524 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1138308007525 putative dimer interface [polypeptide binding]; other site 1138308007526 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 1138308007527 nucleotide binding site/active site [active] 1138308007528 HIT family signature motif; other site 1138308007529 catalytic residue [active] 1138308007530 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 1138308007531 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 1138308007532 N-terminal plug; other site 1138308007533 ligand-binding site [chemical binding]; other site 1138308007534 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 1138308007535 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1138308007536 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308007537 active site turn [active] 1138308007538 phosphorylation site [posttranslational modification] 1138308007539 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1138308007540 active site 1138308007541 DNA polymerase III subunit delta'; Validated; Region: PRK07993 1138308007542 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1138308007543 thymidylate kinase; Validated; Region: tmk; PRK00698 1138308007544 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 1138308007545 TMP-binding site; other site 1138308007546 ATP-binding site [chemical binding]; other site 1138308007547 conserved hypothetical protein, YceG family; Region: TIGR00247 1138308007548 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1138308007549 dimerization interface [polypeptide binding]; other site 1138308007550 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1138308007551 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1138308007552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308007553 catalytic residue [active] 1138308007554 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1138308007555 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 1138308007556 dimer interface [polypeptide binding]; other site 1138308007557 active site 1138308007558 acyl carrier protein; Provisional; Region: acpP; PRK00982 1138308007559 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1138308007560 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1138308007561 NAD(P) binding site [chemical binding]; other site 1138308007562 homotetramer interface [polypeptide binding]; other site 1138308007563 homodimer interface [polypeptide binding]; other site 1138308007564 active site 1138308007565 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1138308007566 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1138308007567 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1138308007568 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 1138308007569 dimer interface [polypeptide binding]; other site 1138308007570 active site 1138308007571 CoA binding pocket [chemical binding]; other site 1138308007572 putative phosphate acyltransferase; Provisional; Region: PRK05331 1138308007573 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1138308007574 hypothetical protein; Provisional; Region: PRK11193 1138308007575 Maf-like protein; Region: Maf; pfam02545 1138308007576 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 1138308007577 active site 1138308007578 dimer interface [polypeptide binding]; other site 1138308007579 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 1138308007580 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1138308007581 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 1138308007582 RNA binding surface [nucleotide binding]; other site 1138308007583 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1138308007584 active site 1138308007585 ribonuclease E; Reviewed; Region: rne; PRK10811 1138308007586 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 1138308007587 homodimer interface [polypeptide binding]; other site 1138308007588 oligonucleotide binding site [chemical binding]; other site 1138308007589 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1138308007590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308007591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308007592 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 1138308007593 putative effector binding pocket; other site 1138308007594 dimerization interface [polypeptide binding]; other site 1138308007595 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1138308007596 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 1138308007597 putative substrate translocation pore; other site 1138308007598 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 1138308007599 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1138308007600 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 1138308007601 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1138308007602 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1138308007603 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1138308007604 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1138308007605 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1138308007606 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1138308007607 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1138308007608 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1138308007609 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1138308007610 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1138308007611 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1138308007612 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1138308007613 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1138308007614 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1138308007615 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1138308007616 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1138308007617 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1138308007618 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1138308007619 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1138308007620 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1138308007621 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1138308007622 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1138308007623 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1138308007624 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1138308007625 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1138308007626 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1138308007627 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1138308007628 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 1138308007629 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1138308007630 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 1138308007631 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 1138308007632 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1138308007633 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1138308007634 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1138308007635 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1138308007636 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1138308007637 hypothetical protein; Provisional; Region: PRK11239 1138308007638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 1138308007639 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 1138308007640 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1138308007641 multidrug resistance protein MdtH; Provisional; Region: PRK11646 1138308007642 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 1138308007643 putative substrate translocation pore; other site 1138308007644 glutaredoxin 2; Provisional; Region: PRK10387 1138308007645 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 1138308007646 C-terminal domain interface [polypeptide binding]; other site 1138308007647 GSH binding site (G-site) [chemical binding]; other site 1138308007648 catalytic residues [active] 1138308007649 putative dimer interface [polypeptide binding]; other site 1138308007650 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 1138308007651 N-terminal domain interface [polypeptide binding]; other site 1138308007652 lipoprotein; Provisional; Region: PRK10598 1138308007653 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 1138308007654 active site 1138308007655 substrate binding pocket [chemical binding]; other site 1138308007656 dimer interface [polypeptide binding]; other site 1138308007657 DNA damage-inducible protein I; Provisional; Region: PRK10597 1138308007658 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 1138308007659 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 1138308007660 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1138308007661 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1138308007662 hypothetical protein; Provisional; Region: PRK03757 1138308007663 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1138308007664 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1138308007665 active site residue [active] 1138308007666 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1138308007667 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1138308007668 putative acyl-acceptor binding pocket; other site 1138308007669 secY/secA suppressor protein; Provisional; Region: PRK11467 1138308007670 lipoprotein; Provisional; Region: PRK10175 1138308007671 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1138308007672 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1138308007673 Ligand binding site; other site 1138308007674 DXD motif; other site 1138308007675 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1138308007676 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 1138308007677 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1138308007678 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1138308007679 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1138308007680 putative active site [active] 1138308007681 catalytic site [active] 1138308007682 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1138308007683 PLD-like domain; Region: PLDc_2; pfam13091 1138308007684 putative active site [active] 1138308007685 catalytic site [active] 1138308007686 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1138308007687 putative ADP-ribose binding site [chemical binding]; other site 1138308007688 putative active site [active] 1138308007689 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1138308007690 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1138308007691 putative hydrolase; Validated; Region: PRK09248 1138308007692 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 1138308007693 active site 1138308007694 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1138308007695 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1138308007696 putative ligand binding site [chemical binding]; other site 1138308007697 NAD binding site [chemical binding]; other site 1138308007698 dimerization interface [polypeptide binding]; other site 1138308007699 catalytic site [active] 1138308007700 Fimbrial protein; Region: Fimbrial; cl01416 1138308007701 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1138308007702 PapC N-terminal domain; Region: PapC_N; pfam13954 1138308007703 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1138308007704 PapC C-terminal domain; Region: PapC_C; pfam13953 1138308007705 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1138308007706 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1138308007707 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1138308007708 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308007709 putative oxidoreductase; Provisional; Region: PRK09939 1138308007710 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1138308007711 putative molybdopterin cofactor binding site [chemical binding]; other site 1138308007712 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1138308007713 putative molybdopterin cofactor binding site; other site 1138308007714 hypothetical protein; Provisional; Region: PRK10536 1138308007715 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1138308007716 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1138308007717 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1138308007718 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 1138308007719 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1138308007720 Imelysin; Region: Peptidase_M75; pfam09375 1138308007721 FTR1 family protein; Region: TIGR00145 1138308007722 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1138308007723 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1138308007724 Nucleoside recognition; Region: Gate; pfam07670 1138308007725 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1138308007726 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 1138308007727 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1138308007728 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1138308007729 Na binding site [ion binding]; other site 1138308007730 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1138308007731 Predicted transcriptional regulator [Transcription]; Region: COG3905 1138308007732 Proline dehydrogenase; Region: Pro_dh; pfam01619 1138308007733 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1138308007734 Glutamate binding site [chemical binding]; other site 1138308007735 NAD binding site [chemical binding]; other site 1138308007736 catalytic residues [active] 1138308007737 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 1138308007738 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308007739 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1138308007740 pyrimidine utilization protein A; Region: RutA; TIGR03612 1138308007741 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1138308007742 active site 1138308007743 dimer interface [polypeptide binding]; other site 1138308007744 non-prolyl cis peptide bond; other site 1138308007745 insertion regions; other site 1138308007746 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1138308007747 Isochorismatase family; Region: Isochorismatase; pfam00857 1138308007748 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 1138308007749 catalytic triad [active] 1138308007750 conserved cis-peptide bond; other site 1138308007751 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 1138308007752 homotrimer interaction site [polypeptide binding]; other site 1138308007753 putative active site [active] 1138308007754 pyrimidine utilization protein D; Region: RutD; TIGR03611 1138308007755 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 1138308007756 putative FMN binding site [chemical binding]; other site 1138308007757 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 1138308007758 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1138308007759 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1138308007760 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1138308007761 hypothetical protein; Provisional; Region: PRK10174 1138308007762 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1138308007763 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308007764 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308007765 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 1138308007766 dimerization interface [polypeptide binding]; other site 1138308007767 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 1138308007768 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1138308007769 ImpA domain protein; Region: DUF3702; pfam12486 1138308007770 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1138308007771 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1138308007772 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1138308007773 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1138308007774 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1138308007775 peptide binding site [polypeptide binding]; other site 1138308007776 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1138308007777 YccA-like proteins; Region: YccA_like; cd10433 1138308007778 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1138308007779 sulfur transfer protein TusE; Provisional; Region: PRK11508 1138308007780 acylphosphatase; Provisional; Region: PRK14426 1138308007781 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 1138308007782 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1138308007783 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1138308007784 putative RNA binding site [nucleotide binding]; other site 1138308007785 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 1138308007786 S-adenosylmethionine binding site [chemical binding]; other site 1138308007787 heat shock protein HspQ; Provisional; Region: PRK14129 1138308007788 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1138308007789 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 1138308007790 active site 1138308007791 dimer interfaces [polypeptide binding]; other site 1138308007792 catalytic residues [active] 1138308007793 DNA helicase IV; Provisional; Region: helD; PRK11054 1138308007794 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 1138308007795 Part of AAA domain; Region: AAA_19; pfam13245 1138308007796 Family description; Region: UvrD_C_2; pfam13538 1138308007797 Predicted membrane protein [Function unknown]; Region: COG3304 1138308007798 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1138308007799 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1138308007800 TIGR01666 family membrane protein; Region: YCCS 1138308007801 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1138308007802 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1138308007803 Prefoldin subunit; Region: Prefoldin_2; pfam01920 1138308007804 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1138308007805 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1138308007806 SOS cell division inhibitor; Provisional; Region: PRK10595 1138308007807 outer membrane protein A; Reviewed; Region: PRK10808 1138308007808 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1138308007809 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1138308007810 ligand binding site [chemical binding]; other site 1138308007811 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 1138308007812 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1138308007813 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1138308007814 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1138308007815 active site 1 [active] 1138308007816 dimer interface [polypeptide binding]; other site 1138308007817 active site 2 [active] 1138308007818 ribosome modulation factor; Provisional; Region: PRK14563 1138308007819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1138308007820 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1138308007821 paraquat-inducible protein B; Provisional; Region: PRK10807 1138308007822 mce related protein; Region: MCE; pfam02470 1138308007823 mce related protein; Region: MCE; pfam02470 1138308007824 mce related protein; Region: MCE; pfam02470 1138308007825 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 1138308007826 Paraquat-inducible protein A; Region: PqiA; pfam04403 1138308007827 Paraquat-inducible protein A; Region: PqiA; pfam04403 1138308007828 ABC transporter ATPase component; Reviewed; Region: PRK11147 1138308007829 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308007830 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308007831 Walker A/P-loop; other site 1138308007832 ATP binding site [chemical binding]; other site 1138308007833 Q-loop/lid; other site 1138308007834 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308007835 ABC transporter signature motif; other site 1138308007836 Walker B; other site 1138308007837 D-loop; other site 1138308007838 ABC transporter; Region: ABC_tran_2; pfam12848 1138308007839 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308007840 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1138308007841 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1138308007842 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 1138308007843 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 1138308007844 S-adenosylmethionine binding site [chemical binding]; other site 1138308007845 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1138308007846 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1138308007847 MOSC domain; Region: MOSC; pfam03473 1138308007848 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 1138308007849 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1138308007850 catalytic loop [active] 1138308007851 iron binding site [ion binding]; other site 1138308007852 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 1138308007853 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1138308007854 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 1138308007855 quinone interaction residues [chemical binding]; other site 1138308007856 active site 1138308007857 catalytic residues [active] 1138308007858 FMN binding site [chemical binding]; other site 1138308007859 substrate binding site [chemical binding]; other site 1138308007860 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1138308007861 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1138308007862 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1138308007863 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 1138308007864 substrate binding pocket [chemical binding]; other site 1138308007865 membrane-bound complex binding site; other site 1138308007866 hinge residues; other site 1138308007867 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1138308007868 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1138308007869 active site 1138308007870 dimer interface [polypeptide binding]; other site 1138308007871 non-prolyl cis peptide bond; other site 1138308007872 insertion regions; other site 1138308007873 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1138308007874 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 1138308007875 dimer interface [polypeptide binding]; other site 1138308007876 conserved gate region; other site 1138308007877 putative PBP binding loops; other site 1138308007878 ABC-ATPase subunit interface; other site 1138308007879 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1138308007880 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1138308007881 Walker A/P-loop; other site 1138308007882 ATP binding site [chemical binding]; other site 1138308007883 Q-loop/lid; other site 1138308007884 ABC transporter signature motif; other site 1138308007885 Walker B; other site 1138308007886 D-loop; other site 1138308007887 H-loop/switch region; other site 1138308007888 aminopeptidase N; Provisional; Region: pepN; PRK14015 1138308007889 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1138308007890 active site 1138308007891 Zn binding site [ion binding]; other site 1138308007892 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1138308007893 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 1138308007894 active site 1138308007895 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1138308007896 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1138308007897 putative dimer interface [polypeptide binding]; other site 1138308007898 putative anticodon binding site; other site 1138308007899 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1138308007900 homodimer interface [polypeptide binding]; other site 1138308007901 motif 1; other site 1138308007902 motif 2; other site 1138308007903 active site 1138308007904 motif 3; other site 1138308007905 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1138308007906 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 1138308007907 eyelet of channel; other site 1138308007908 trimer interface [polypeptide binding]; other site 1138308007909 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1138308007910 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 1138308007911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308007912 homodimer interface [polypeptide binding]; other site 1138308007913 catalytic residue [active] 1138308007914 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1138308007915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1138308007916 Peptidase M15; Region: Peptidase_M15_3; cl01194 1138308007917 murein L,D-transpeptidase; Provisional; Region: PRK10594 1138308007918 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1138308007919 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1138308007920 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1138308007921 cell division protein MukB; Provisional; Region: mukB; PRK04863 1138308007922 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1138308007923 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1138308007924 condesin subunit E; Provisional; Region: PRK05256 1138308007925 condesin subunit F; Provisional; Region: PRK05260 1138308007926 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 1138308007927 S-adenosylmethionine binding site [chemical binding]; other site 1138308007928 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1138308007929 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1138308007930 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 1138308007931 putative active site [active] 1138308007932 hypothetical protein; Provisional; Region: PRK10593 1138308007933 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 1138308007934 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1138308007935 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1138308007936 AsnC family; Region: AsnC_trans_reg; pfam01037 1138308007937 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1138308007938 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1138308007939 Ligand binding site; other site 1138308007940 oligomer interface; other site 1138308007941 Trm112p-like protein; Region: Trm112p; cl01066 1138308007942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1138308007943 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1138308007944 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1138308007945 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1138308007946 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1138308007947 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1138308007948 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1138308007949 Walker A/P-loop; other site 1138308007950 ATP binding site [chemical binding]; other site 1138308007951 Q-loop/lid; other site 1138308007952 ABC transporter signature motif; other site 1138308007953 Walker B; other site 1138308007954 D-loop; other site 1138308007955 H-loop/switch region; other site 1138308007956 ComEC family competence protein; Provisional; Region: PRK11539 1138308007957 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1138308007958 Competence protein; Region: Competence; pfam03772 1138308007959 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1138308007960 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 1138308007961 IHF dimer interface [polypeptide binding]; other site 1138308007962 IHF - DNA interface [nucleotide binding]; other site 1138308007963 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1138308007964 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 1138308007965 RNA binding site [nucleotide binding]; other site 1138308007966 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 1138308007967 RNA binding site [nucleotide binding]; other site 1138308007968 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 1138308007969 RNA binding site [nucleotide binding]; other site 1138308007970 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 1138308007971 RNA binding site [nucleotide binding]; other site 1138308007972 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 1138308007973 RNA binding site [nucleotide binding]; other site 1138308007974 cytidylate kinase; Provisional; Region: cmk; PRK00023 1138308007975 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 1138308007976 CMP-binding site; other site 1138308007977 The sites determining sugar specificity; other site 1138308007978 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1138308007979 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 1138308007980 hinge; other site 1138308007981 active site 1138308007982 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 1138308007983 homodimer interface [polypeptide binding]; other site 1138308007984 substrate-cofactor binding pocket; other site 1138308007985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308007986 catalytic residue [active] 1138308007987 Predicted membrane protein [Function unknown]; Region: COG2323 1138308007988 uncharacterized domain; Region: TIGR00702 1138308007989 YcaO-like family; Region: YcaO; pfam02624 1138308007990 formate transporter; Provisional; Region: PRK10805 1138308007991 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1138308007992 Pyruvate formate lyase 1; Region: PFL1; cd01678 1138308007993 coenzyme A binding site [chemical binding]; other site 1138308007994 active site 1138308007995 catalytic residues [active] 1138308007996 glycine loop; other site 1138308007997 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1138308007998 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 1138308007999 FeS/SAM binding site; other site 1138308008000 putative MFS family transporter protein; Provisional; Region: PRK03633 1138308008001 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 1138308008002 putative substrate translocation pore; other site 1138308008003 seryl-tRNA synthetase; Provisional; Region: PRK05431 1138308008004 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1138308008005 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 1138308008006 dimer interface [polypeptide binding]; other site 1138308008007 active site 1138308008008 motif 1; other site 1138308008009 motif 2; other site 1138308008010 motif 3; other site 1138308008011 recombination factor protein RarA; Reviewed; Region: PRK13342 1138308008012 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 1138308008013 Walker A motif; other site 1138308008014 ATP binding site [chemical binding]; other site 1138308008015 Walker B motif; other site 1138308008016 arginine finger; other site 1138308008017 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1138308008018 periplasmic chaperone LolA; Region: lolA; TIGR00547 1138308008019 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1138308008020 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1138308008021 DNA translocase FtsK; Provisional; Region: PRK10263 1138308008022 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1138308008023 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1138308008024 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1138308008025 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 1138308008026 putative DNA binding site [nucleotide binding]; other site 1138308008027 putative Zn2+ binding site [ion binding]; other site 1138308008028 AsnC family; Region: AsnC_trans_reg; pfam01037 1138308008029 thioredoxin reductase; Provisional; Region: PRK10262 1138308008030 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1138308008031 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308008032 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1138308008033 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1138308008034 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308008035 Walker A/P-loop; other site 1138308008036 ATP binding site [chemical binding]; other site 1138308008037 Q-loop/lid; other site 1138308008038 ABC transporter signature motif; other site 1138308008039 Walker B; other site 1138308008040 D-loop; other site 1138308008041 H-loop/switch region; other site 1138308008042 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1138308008043 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1138308008044 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 1138308008045 Walker A/P-loop; other site 1138308008046 ATP binding site [chemical binding]; other site 1138308008047 Q-loop/lid; other site 1138308008048 ABC transporter signature motif; other site 1138308008049 Walker B; other site 1138308008050 D-loop; other site 1138308008051 H-loop/switch region; other site 1138308008052 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1138308008053 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 1138308008054 rRNA binding site [nucleotide binding]; other site 1138308008055 predicted 30S ribosome binding site; other site 1138308008056 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1138308008057 Clp amino terminal domain; Region: Clp_N; pfam02861 1138308008058 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 1138308008059 Walker A motif; other site 1138308008060 ATP binding site [chemical binding]; other site 1138308008061 Walker B motif; other site 1138308008062 arginine finger; other site 1138308008063 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 1138308008064 Walker A motif; other site 1138308008065 ATP binding site [chemical binding]; other site 1138308008066 Walker B motif; other site 1138308008067 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1138308008068 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1138308008069 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 1138308008070 DNA-binding site [nucleotide binding]; DNA binding site 1138308008071 RNA-binding motif; other site 1138308008072 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1138308008073 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1138308008074 Walker A/P-loop; other site 1138308008075 ATP binding site [chemical binding]; other site 1138308008076 Q-loop/lid; other site 1138308008077 ABC transporter signature motif; other site 1138308008078 Walker B; other site 1138308008079 D-loop; other site 1138308008080 H-loop/switch region; other site 1138308008081 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1138308008082 FtsX-like permease family; Region: FtsX; pfam02687 1138308008083 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1138308008084 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308008085 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308008086 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1138308008087 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1138308008088 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1138308008089 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1138308008090 putative active site [active] 1138308008091 putative metal-binding site [ion binding]; other site 1138308008092 Predicted membrane protein [Function unknown]; Region: COG2431 1138308008093 hybrid cluster protein; Provisional; Region: PRK05290 1138308008094 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 1138308008095 ACS interaction site; other site 1138308008096 CODH interaction site; other site 1138308008097 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 1138308008098 hybrid metal cluster; other site 1138308008099 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 1138308008100 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1138308008101 FAD binding pocket [chemical binding]; other site 1138308008102 FAD binding motif [chemical binding]; other site 1138308008103 phosphate binding motif [ion binding]; other site 1138308008104 beta-alpha-beta structure motif; other site 1138308008105 NAD binding pocket [chemical binding]; other site 1138308008106 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 1138308008107 catalytic loop [active] 1138308008108 iron binding site [ion binding]; other site 1138308008109 pyruvate dehydrogenase; Provisional; Region: PRK09124 1138308008110 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1138308008111 PYR/PP interface [polypeptide binding]; other site 1138308008112 dimer interface [polypeptide binding]; other site 1138308008113 tetramer interface [polypeptide binding]; other site 1138308008114 TPP binding site [chemical binding]; other site 1138308008115 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1138308008116 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 1138308008117 TPP-binding site [chemical binding]; other site 1138308008118 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1138308008119 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 1138308008120 tetramer interface [polypeptide binding]; other site 1138308008121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308008122 catalytic residue [active] 1138308008123 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1138308008124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308008125 NAD(P) binding site [chemical binding]; other site 1138308008126 active site 1138308008127 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1138308008128 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 1138308008129 amidase catalytic site [active] 1138308008130 Zn binding residues [ion binding]; other site 1138308008131 substrate binding site [chemical binding]; other site 1138308008132 hypothetical protein; Provisional; Region: PRK02877 1138308008133 putative lipoprotein; Provisional; Region: PRK10533 1138308008134 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1138308008135 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308008136 Walker A/P-loop; other site 1138308008137 ATP binding site [chemical binding]; other site 1138308008138 Q-loop/lid; other site 1138308008139 ABC transporter signature motif; other site 1138308008140 Walker B; other site 1138308008141 D-loop; other site 1138308008142 H-loop/switch region; other site 1138308008143 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1138308008144 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 1138308008145 substrate binding pocket [chemical binding]; other site 1138308008146 membrane-bound complex binding site; other site 1138308008147 hinge residues; other site 1138308008148 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1138308008149 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 1138308008150 dimer interface [polypeptide binding]; other site 1138308008151 conserved gate region; other site 1138308008152 putative PBP binding loops; other site 1138308008153 ABC-ATPase subunit interface; other site 1138308008154 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 1138308008155 dimer interface [polypeptide binding]; other site 1138308008156 conserved gate region; other site 1138308008157 putative PBP binding loops; other site 1138308008158 ABC-ATPase subunit interface; other site 1138308008159 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1138308008160 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 1138308008161 substrate binding pocket [chemical binding]; other site 1138308008162 membrane-bound complex binding site; other site 1138308008163 hinge residues; other site 1138308008164 Cupin domain; Region: Cupin_2; pfam07883 1138308008165 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1138308008166 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308008167 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308008168 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 1138308008169 galactoside permease; Reviewed; Region: lacY; PRK09528 1138308008170 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 1138308008171 putative substrate translocation pore; other site 1138308008172 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 1138308008173 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 1138308008174 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 1138308008175 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1138308008176 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 1138308008177 dimer interface [polypeptide binding]; other site 1138308008178 conserved gate region; other site 1138308008179 putative PBP binding loops; other site 1138308008180 ABC-ATPase subunit interface; other site 1138308008181 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 1138308008182 dimer interface [polypeptide binding]; other site 1138308008183 conserved gate region; other site 1138308008184 putative PBP binding loops; other site 1138308008185 ABC-ATPase subunit interface; other site 1138308008186 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1138308008187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308008188 Walker A/P-loop; other site 1138308008189 ATP binding site [chemical binding]; other site 1138308008190 Q-loop/lid; other site 1138308008191 ABC transporter signature motif; other site 1138308008192 Walker B; other site 1138308008193 D-loop; other site 1138308008194 H-loop/switch region; other site 1138308008195 TOBE domain; Region: TOBE_2; pfam08402 1138308008196 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1138308008197 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1138308008198 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1138308008199 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1138308008200 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1138308008201 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 1138308008202 dimer interface [polypeptide binding]; other site 1138308008203 FMN binding site [chemical binding]; other site 1138308008204 NADPH bind site [chemical binding]; other site 1138308008205 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 1138308008206 putative transporter; Provisional; Region: PRK04972 1138308008207 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1138308008208 TrkA-C domain; Region: TrkA_C; pfam02080 1138308008209 TrkA-C domain; Region: TrkA_C; pfam02080 1138308008210 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1138308008211 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308008212 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1138308008213 potential frameshift: common BLAST hit: gi|260597240|ref|YP_003209811.1| Inner membrane protein YbjJ 1138308008214 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1138308008215 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 1138308008216 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1138308008217 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1138308008218 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1138308008219 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1138308008220 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 1138308008221 active site 1138308008222 motif I; other site 1138308008223 motif II; other site 1138308008224 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 1138308008225 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 1138308008226 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 1138308008227 putative substrate translocation pore; other site 1138308008228 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 1138308008229 active site 1138308008230 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 1138308008231 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1138308008232 active site 1138308008233 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 1138308008234 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1138308008235 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1138308008236 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 1138308008237 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1138308008238 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1138308008239 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1138308008240 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 1138308008241 putative C-terminal domain interface [polypeptide binding]; other site 1138308008242 putative GSH binding site (G-site) [chemical binding]; other site 1138308008243 putative dimer interface [polypeptide binding]; other site 1138308008244 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1138308008245 putative N-terminal domain interface [polypeptide binding]; other site 1138308008246 putative dimer interface [polypeptide binding]; other site 1138308008247 putative substrate binding pocket (H-site) [chemical binding]; other site 1138308008248 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1138308008249 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1138308008250 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1138308008251 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1138308008252 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 1138308008253 FeS/SAM binding site; other site 1138308008254 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1138308008255 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 1138308008256 dimer interface [polypeptide binding]; other site 1138308008257 conserved gate region; other site 1138308008258 putative PBP binding loops; other site 1138308008259 ABC-ATPase subunit interface; other site 1138308008260 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1138308008261 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 1138308008262 dimer interface [polypeptide binding]; other site 1138308008263 conserved gate region; other site 1138308008264 putative PBP binding loops; other site 1138308008265 ABC-ATPase subunit interface; other site 1138308008266 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1138308008267 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 1138308008268 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1138308008269 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308008270 Walker A/P-loop; other site 1138308008271 ATP binding site [chemical binding]; other site 1138308008272 Q-loop/lid; other site 1138308008273 ABC transporter signature motif; other site 1138308008274 Walker B; other site 1138308008275 D-loop; other site 1138308008276 H-loop/switch region; other site 1138308008277 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1138308008278 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1138308008279 Walker A/P-loop; other site 1138308008280 ATP binding site [chemical binding]; other site 1138308008281 Q-loop/lid; other site 1138308008282 ABC transporter signature motif; other site 1138308008283 Walker B; other site 1138308008284 D-loop; other site 1138308008285 H-loop/switch region; other site 1138308008286 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1138308008287 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1138308008288 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 1138308008289 dimer interface [polypeptide binding]; other site 1138308008290 putative functional site; other site 1138308008291 putative MPT binding site; other site 1138308008292 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1138308008293 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 1138308008294 ATP binding site [chemical binding]; other site 1138308008295 substrate interface [chemical binding]; other site 1138308008296 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308008297 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308008298 DNA binding site [nucleotide binding] 1138308008299 domain linker motif; other site 1138308008300 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 1138308008301 ligand binding site [chemical binding]; other site 1138308008302 dimerization interface [polypeptide binding]; other site 1138308008303 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 1138308008304 D-galactonate transporter; Region: 2A0114; TIGR00893 1138308008305 putative substrate translocation pore; other site 1138308008306 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1138308008307 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1138308008308 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 1138308008309 putative active site [active] 1138308008310 putative catalytic site [active] 1138308008311 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1138308008312 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1138308008313 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308008314 Walker A/P-loop; other site 1138308008315 ATP binding site [chemical binding]; other site 1138308008316 Q-loop/lid; other site 1138308008317 ABC transporter signature motif; other site 1138308008318 Walker B; other site 1138308008319 D-loop; other site 1138308008320 H-loop/switch region; other site 1138308008321 ABC transporter; Region: ABC_tran_2; pfam12848 1138308008322 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308008323 L,D-transpeptidase; Provisional; Region: PRK10260 1138308008324 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1138308008325 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1138308008326 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1138308008327 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 1138308008328 putative substrate translocation pore; other site 1138308008329 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 1138308008330 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1138308008331 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308008332 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308008333 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 1138308008334 transmembrane helices; other site 1138308008335 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1138308008336 manganese transport regulator MntR; Provisional; Region: PRK11050 1138308008337 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1138308008338 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1138308008339 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1138308008340 Sulfatase; Region: Sulfatase; pfam00884 1138308008341 outer membrane protein X; Provisional; Region: ompX; PRK09408 1138308008342 threonine and homoserine efflux system; Provisional; Region: PRK10532 1138308008343 EamA-like transporter family; Region: EamA; pfam00892 1138308008344 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1138308008345 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1138308008346 dimerization interface [polypeptide binding]; other site 1138308008347 DPS ferroxidase diiron center [ion binding]; other site 1138308008348 ion pore; other site 1138308008349 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 1138308008350 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 1138308008351 substrate binding pocket [chemical binding]; other site 1138308008352 membrane-bound complex binding site; other site 1138308008353 hinge residues; other site 1138308008354 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1138308008355 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 1138308008356 dimer interface [polypeptide binding]; other site 1138308008357 conserved gate region; other site 1138308008358 putative PBP binding loops; other site 1138308008359 ABC-ATPase subunit interface; other site 1138308008360 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1138308008361 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1138308008362 Walker A/P-loop; other site 1138308008363 ATP binding site [chemical binding]; other site 1138308008364 Q-loop/lid; other site 1138308008365 ABC transporter signature motif; other site 1138308008366 Walker B; other site 1138308008367 D-loop; other site 1138308008368 H-loop/switch region; other site 1138308008369 putative mechanosensitive channel protein; Provisional; Region: PRK11465 1138308008370 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1138308008371 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1138308008372 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 1138308008373 S-adenosylmethionine binding site [chemical binding]; other site 1138308008374 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1138308008375 hypothetical protein; Provisional; Region: PRK11019 1138308008376 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 1138308008377 glycosyl transferase family protein; Provisional; Region: PRK08136 1138308008378 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1138308008379 Fimbrial protein; Region: Fimbrial; cl01416 1138308008380 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1138308008381 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1138308008382 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1138308008383 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1138308008384 PapC N-terminal domain; Region: PapC_N; pfam13954 1138308008385 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1138308008386 PapC C-terminal domain; Region: PapC_C; pfam13953 1138308008387 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308008388 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308008389 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1138308008390 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 1138308008391 DEAD_2; Region: DEAD_2; pfam06733 1138308008392 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1138308008393 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1138308008394 CAT RNA binding domain; Region: CAT_RBD; smart01061 1138308008395 PRD domain; Region: PRD; pfam00874 1138308008396 PRD domain; Region: PRD; pfam00874 1138308008397 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1138308008398 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308008399 active site turn [active] 1138308008400 phosphorylation site [posttranslational modification] 1138308008401 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1138308008402 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1138308008403 HPr interaction site; other site 1138308008404 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1138308008405 active site 1138308008406 phosphorylation site [posttranslational modification] 1138308008407 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1138308008408 beta-galactosidase; Region: BGL; TIGR03356 1138308008409 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1138308008410 beta-galactosidase; Region: BGL; TIGR03356 1138308008411 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1138308008412 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 1138308008413 ATP binding site [chemical binding]; other site 1138308008414 Mg++ binding site [ion binding]; other site 1138308008415 motif III; other site 1138308008416 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 1138308008417 nucleotide binding region [chemical binding]; other site 1138308008418 ATP-binding site [chemical binding]; other site 1138308008419 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 1138308008420 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308008421 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1138308008422 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1138308008423 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308008424 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308008425 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1138308008426 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1138308008427 Walker A/P-loop; other site 1138308008428 ATP binding site [chemical binding]; other site 1138308008429 Q-loop/lid; other site 1138308008430 ABC transporter signature motif; other site 1138308008431 Walker B; other site 1138308008432 D-loop; other site 1138308008433 H-loop/switch region; other site 1138308008434 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1138308008435 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1138308008436 Walker A/P-loop; other site 1138308008437 ATP binding site [chemical binding]; other site 1138308008438 Q-loop/lid; other site 1138308008439 ABC transporter signature motif; other site 1138308008440 Walker B; other site 1138308008441 D-loop; other site 1138308008442 H-loop/switch region; other site 1138308008443 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1138308008444 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1138308008445 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1138308008446 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1138308008447 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 1138308008448 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1138308008449 putative catalytic site [active] 1138308008450 putative metal binding site [ion binding]; other site 1138308008451 putative phosphate binding site [ion binding]; other site 1138308008452 cardiolipin synthase 2; Provisional; Region: PRK11263 1138308008453 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1138308008454 putative active site [active] 1138308008455 catalytic site [active] 1138308008456 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1138308008457 putative active site [active] 1138308008458 catalytic site [active] 1138308008459 Predicted integral membrane protein [Function unknown]; Region: COG0392 1138308008460 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1138308008461 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1138308008462 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 1138308008463 MoaE homodimer interface [polypeptide binding]; other site 1138308008464 MoaD interaction [polypeptide binding]; other site 1138308008465 active site residues [active] 1138308008466 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1138308008467 MoaE interaction surface [polypeptide binding]; other site 1138308008468 MoeB interaction surface [polypeptide binding]; other site 1138308008469 thiocarboxylated glycine; other site 1138308008470 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 1138308008471 trimer interface [polypeptide binding]; other site 1138308008472 dimer interface [polypeptide binding]; other site 1138308008473 putative active site [active] 1138308008474 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 1138308008475 MPT binding site; other site 1138308008476 trimer interface [polypeptide binding]; other site 1138308008477 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1138308008478 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 1138308008479 FeS/SAM binding site; other site 1138308008480 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1138308008481 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1138308008482 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1138308008483 phosphate binding site [ion binding]; other site 1138308008484 putative substrate binding pocket [chemical binding]; other site 1138308008485 dimer interface [polypeptide binding]; other site 1138308008486 excinuclease ABC subunit B; Provisional; Region: PRK05298 1138308008487 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 1138308008488 ATP binding site [chemical binding]; other site 1138308008489 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 1138308008490 nucleotide binding region [chemical binding]; other site 1138308008491 ATP-binding site [chemical binding]; other site 1138308008492 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1138308008493 UvrB/uvrC motif; Region: UVR; pfam02151 1138308008494 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1138308008495 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308008496 Walker A/P-loop; other site 1138308008497 ATP binding site [chemical binding]; other site 1138308008498 Q-loop/lid; other site 1138308008499 ABC transporter signature motif; other site 1138308008500 Walker B; other site 1138308008501 D-loop; other site 1138308008502 H-loop/switch region; other site 1138308008503 AAA domain; Region: AAA_26; pfam13500 1138308008504 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 1138308008505 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1138308008506 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 1138308008507 S-adenosylmethionine binding site [chemical binding]; other site 1138308008508 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1138308008509 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1138308008510 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1138308008511 catalytic residue [active] 1138308008512 biotin synthase; Provisional; Region: PRK15108 1138308008513 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 1138308008514 FeS/SAM binding site; other site 1138308008515 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1138308008516 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1138308008517 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 1138308008518 inhibitor-cofactor binding pocket; inhibition site 1138308008519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308008520 catalytic residue [active] 1138308008521 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1138308008522 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1138308008523 potential catalytic triad [active] 1138308008524 conserved cys residue [active] 1138308008525 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1138308008526 substrate binding site [chemical binding]; other site 1138308008527 acyl-CoA thioesterase; Provisional; Region: PRK10531 1138308008528 putative pectinesterase; Region: PLN02432; cl01911 1138308008529 6-phosphogluconolactonase; Provisional; Region: PRK11028 1138308008530 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1138308008531 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 1138308008532 active site 1138308008533 motif I; other site 1138308008534 motif II; other site 1138308008535 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 1138308008536 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1138308008537 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308008538 Walker A/P-loop; other site 1138308008539 ATP binding site [chemical binding]; other site 1138308008540 Q-loop/lid; other site 1138308008541 ABC transporter signature motif; other site 1138308008542 Walker B; other site 1138308008543 D-loop; other site 1138308008544 H-loop/switch region; other site 1138308008545 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1138308008546 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1138308008547 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 1138308008548 dimer interface [polypeptide binding]; other site 1138308008549 conserved gate region; other site 1138308008550 putative PBP binding loops; other site 1138308008551 ABC-ATPase subunit interface; other site 1138308008552 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1138308008553 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 1138308008554 substrate binding pocket [chemical binding]; other site 1138308008555 membrane-bound complex binding site; other site 1138308008556 hinge residues; other site 1138308008557 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1138308008558 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1138308008559 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1138308008560 TOBE domain; Region: TOBE; pfam03459 1138308008561 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1138308008562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308008563 Walker A/P-loop; other site 1138308008564 ATP binding site [chemical binding]; other site 1138308008565 ABC transporter signature motif; other site 1138308008566 Walker B; other site 1138308008567 D-loop; other site 1138308008568 H-loop/switch region; other site 1138308008569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308008570 Walker A/P-loop; other site 1138308008571 ATP binding site [chemical binding]; other site 1138308008572 Q-loop/lid; other site 1138308008573 ABC transporter signature motif; other site 1138308008574 Walker B; other site 1138308008575 D-loop; other site 1138308008576 H-loop/switch region; other site 1138308008577 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 1138308008578 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1138308008579 NAD binding site [chemical binding]; other site 1138308008580 homodimer interface [polypeptide binding]; other site 1138308008581 active site 1138308008582 substrate binding site [chemical binding]; other site 1138308008583 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1138308008584 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1138308008585 dimer interface [polypeptide binding]; other site 1138308008586 active site 1138308008587 galactokinase; Provisional; Region: PRK05101 1138308008588 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1138308008589 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1138308008590 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1138308008591 active site 1138308008592 catalytic residues [active] 1138308008593 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 1138308008594 catalytic core [active] 1138308008595 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 1138308008596 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1138308008597 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1138308008598 zinc transporter ZitB; Provisional; Region: PRK03557 1138308008599 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 1138308008600 quinolinate synthetase; Provisional; Region: PRK09375 1138308008601 tol-pal system protein YbgF; Provisional; Region: PRK10803 1138308008602 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1138308008603 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1138308008604 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1138308008605 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1138308008606 ligand binding site [chemical binding]; other site 1138308008607 translocation protein TolB; Provisional; Region: tolB; PRK03629 1138308008608 TolB amino-terminal domain; Region: TolB_N; pfam04052 1138308008609 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1138308008610 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1138308008611 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1138308008612 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 1138308008613 TolA C-terminal; Region: TolA; pfam06519 1138308008614 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1138308008615 colicin uptake protein TolR; Provisional; Region: PRK11024 1138308008616 colicin uptake protein TolQ; Provisional; Region: PRK10801 1138308008617 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 1138308008618 active site 1138308008619 hypothetical protein; Provisional; Region: PRK10588 1138308008620 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 1138308008621 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 1138308008622 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1138308008623 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1138308008624 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1138308008625 alpha-mannosidase; Provisional; Region: PRK09819 1138308008626 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 1138308008627 active site 1138308008628 metal binding site [ion binding]; metal-binding site 1138308008629 catalytic site [active] 1138308008630 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1138308008631 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1138308008632 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 1138308008633 active site 1138308008634 phosphorylation site [posttranslational modification] 1138308008635 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1138308008636 active site 1138308008637 P-loop; other site 1138308008638 phosphorylation site [posttranslational modification] 1138308008639 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1138308008640 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 1138308008641 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308008642 DNA-binding site [nucleotide binding]; DNA binding site 1138308008643 UTRA domain; Region: UTRA; pfam07702 1138308008644 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1138308008645 CoA binding domain; Region: CoA_binding; smart00881 1138308008646 CoA-ligase; Region: Ligase_CoA; pfam00549 1138308008647 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1138308008648 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1138308008649 CoA-ligase; Region: Ligase_CoA; pfam00549 1138308008650 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1138308008651 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 1138308008652 E3 interaction surface; other site 1138308008653 lipoyl attachment site [posttranslational modification]; other site 1138308008654 e3 binding domain; Region: E3_binding; pfam02817 1138308008655 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1138308008656 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1138308008657 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 1138308008658 TPP-binding site [chemical binding]; other site 1138308008659 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1138308008660 dimer interface [polypeptide binding]; other site 1138308008661 PYR/PP interface [polypeptide binding]; other site 1138308008662 TPP binding site [chemical binding]; other site 1138308008663 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1138308008664 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1138308008665 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 1138308008666 L-aspartate oxidase; Provisional; Region: PRK06175 1138308008667 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1138308008668 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 1138308008669 SdhC subunit interface [polypeptide binding]; other site 1138308008670 proximal heme binding site [chemical binding]; other site 1138308008671 cardiolipin binding site; other site 1138308008672 Iron-sulfur protein interface; other site 1138308008673 proximal quinone binding site [chemical binding]; other site 1138308008674 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 1138308008675 Iron-sulfur protein interface; other site 1138308008676 proximal quinone binding site [chemical binding]; other site 1138308008677 SdhD (CybS) interface [polypeptide binding]; other site 1138308008678 proximal heme binding site [chemical binding]; other site 1138308008679 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 1138308008680 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1138308008681 dimer interface [polypeptide binding]; other site 1138308008682 active site 1138308008683 citrylCoA binding site [chemical binding]; other site 1138308008684 NADH binding [chemical binding]; other site 1138308008685 cationic pore residues; other site 1138308008686 oxalacetate/citrate binding site [chemical binding]; other site 1138308008687 coenzyme A binding site [chemical binding]; other site 1138308008688 catalytic triad [active] 1138308008689 endonuclease VIII; Provisional; Region: PRK10445 1138308008690 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 1138308008691 DNA binding site [nucleotide binding] 1138308008692 catalytic residue [active] 1138308008693 putative catalytic residues [active] 1138308008694 H2TH interface [polypeptide binding]; other site 1138308008695 intercalation triad [nucleotide binding]; other site 1138308008696 substrate specificity determining residue; other site 1138308008697 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1138308008698 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1138308008699 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1138308008700 Predicted membrane protein [Function unknown]; Region: COG3817 1138308008701 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1138308008702 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1138308008703 MarR family; Region: MarR_2; cl17246 1138308008704 LamB/YcsF family protein; Provisional; Region: PRK05406 1138308008705 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1138308008706 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1138308008707 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1138308008708 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1138308008709 metal-binding protein; Provisional; Region: PRK10799 1138308008710 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1138308008711 DNA photolyase; Region: DNA_photolyase; pfam00875 1138308008712 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1138308008713 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1138308008714 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 1138308008715 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 1138308008716 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1138308008717 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1138308008718 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1138308008719 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1138308008720 sensor protein KdpD; Provisional; Region: PRK10490 1138308008721 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1138308008722 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 1138308008723 Ligand Binding Site [chemical binding]; other site 1138308008724 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1138308008725 GAF domain; Region: GAF_3; pfam13492 1138308008726 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 1138308008727 dimer interface [polypeptide binding]; other site 1138308008728 phosphorylation site [posttranslational modification] 1138308008729 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 1138308008730 ATP binding site [chemical binding]; other site 1138308008731 Mg2+ binding site [ion binding]; other site 1138308008732 G-X-G motif; other site 1138308008733 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1138308008734 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 1138308008735 active site 1138308008736 phosphorylation site [posttranslational modification] 1138308008737 intermolecular recognition site; other site 1138308008738 dimerization interface [polypeptide binding]; other site 1138308008739 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 1138308008740 DNA binding site [nucleotide binding] 1138308008741 potential frameshift: common BLAST hit: gi|156934806|ref|YP_001438722.1| ornithine decarboxylase 1138308008742 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1138308008743 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 1138308008744 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 1138308008745 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1138308008746 catalytic residue [active] 1138308008747 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1138308008748 putrescine transporter; Provisional; Region: potE; PRK10655 1138308008749 phosphoglucomutase; Validated; Region: PRK07564 1138308008750 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1138308008751 active site 1138308008752 substrate binding site [chemical binding]; other site 1138308008753 metal binding site [ion binding]; metal-binding site 1138308008754 replication initiation regulator SeqA; Provisional; Region: PRK11187 1138308008755 acyl-CoA esterase; Provisional; Region: PRK10673 1138308008756 PGAP1-like protein; Region: PGAP1; pfam07819 1138308008757 LexA regulated protein; Provisional; Region: PRK11675 1138308008758 flavodoxin FldA; Validated; Region: PRK09267 1138308008759 ferric uptake regulator; Provisional; Region: fur; PRK09462 1138308008760 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1138308008761 metal binding site 2 [ion binding]; metal-binding site 1138308008762 putative DNA binding helix; other site 1138308008763 metal binding site 1 [ion binding]; metal-binding site 1138308008764 dimer interface [polypeptide binding]; other site 1138308008765 structural Zn2+ binding site [ion binding]; other site 1138308008766 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 1138308008767 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 1138308008768 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 1138308008769 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 1138308008770 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 1138308008771 active site 1138308008772 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 1138308008773 outer membrane porin, OprD family; Region: OprD; pfam03573 1138308008774 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1138308008775 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1138308008776 active site 1138308008777 HIGH motif; other site 1138308008778 nucleotide binding site [chemical binding]; other site 1138308008779 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1138308008780 KMSKS motif; other site 1138308008781 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1138308008782 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 1138308008783 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1138308008784 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308008785 active site turn [active] 1138308008786 phosphorylation site [posttranslational modification] 1138308008787 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 1138308008788 HPr interaction site; other site 1138308008789 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1138308008790 active site 1138308008791 phosphorylation site [posttranslational modification] 1138308008792 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1138308008793 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1138308008794 active site 1138308008795 trimer interface [polypeptide binding]; other site 1138308008796 allosteric site; other site 1138308008797 active site lid [active] 1138308008798 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1138308008799 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 1138308008800 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1138308008801 active site 1138308008802 dimer interface [polypeptide binding]; other site 1138308008803 MarR family; Region: MarR; pfam01047 1138308008804 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1138308008805 ROK family; Region: ROK; pfam00480 1138308008806 UMP phosphatase; Provisional; Region: PRK10444 1138308008807 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 1138308008808 active site 1138308008809 motif I; other site 1138308008810 motif II; other site 1138308008811 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 1138308008812 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1138308008813 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 1138308008814 active site 1138308008815 dimer interface [polypeptide binding]; other site 1138308008816 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 1138308008817 Ligand Binding Site [chemical binding]; other site 1138308008818 Molecular Tunnel; other site 1138308008819 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1138308008820 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1138308008821 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1138308008822 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1138308008823 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 1138308008824 FeS/SAM binding site; other site 1138308008825 TRAM domain; Region: TRAM; pfam01938 1138308008826 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1138308008827 PhoH-like protein; Region: PhoH; pfam02562 1138308008828 metal-binding heat shock protein; Provisional; Region: PRK00016 1138308008829 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 1138308008830 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 1138308008831 Transporter associated domain; Region: CorC_HlyC; smart01091 1138308008832 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1138308008833 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1138308008834 putative active site [active] 1138308008835 catalytic triad [active] 1138308008836 putative dimer interface [polypeptide binding]; other site 1138308008837 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1138308008838 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 1138308008839 substrate binding pocket [chemical binding]; other site 1138308008840 membrane-bound complex binding site; other site 1138308008841 hinge residues; other site 1138308008842 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1138308008843 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 1138308008844 dimer interface [polypeptide binding]; other site 1138308008845 conserved gate region; other site 1138308008846 putative PBP binding loops; other site 1138308008847 ABC-ATPase subunit interface; other site 1138308008848 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1138308008849 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 1138308008850 dimer interface [polypeptide binding]; other site 1138308008851 conserved gate region; other site 1138308008852 putative PBP binding loops; other site 1138308008853 ABC-ATPase subunit interface; other site 1138308008854 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1138308008855 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1138308008856 Walker A/P-loop; other site 1138308008857 ATP binding site [chemical binding]; other site 1138308008858 Q-loop/lid; other site 1138308008859 ABC transporter signature motif; other site 1138308008860 Walker B; other site 1138308008861 D-loop; other site 1138308008862 H-loop/switch region; other site 1138308008863 hypothetical protein; Provisional; Region: PRK11032 1138308008864 Predicted integral membrane metal-binding protein (DUF2296); Region: DUF2296; pfam10058 1138308008865 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1138308008866 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1138308008867 HIGH motif; other site 1138308008868 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1138308008869 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1138308008870 active site 1138308008871 KMSKS motif; other site 1138308008872 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1138308008873 tRNA binding surface [nucleotide binding]; other site 1138308008874 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1138308008875 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 1138308008876 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1138308008877 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1138308008878 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1138308008879 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1138308008880 active site 1138308008881 (T/H)XGH motif; other site 1138308008882 ribosome-associated protein; Provisional; Region: PRK11538 1138308008883 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 1138308008884 penicillin-binding protein 2; Provisional; Region: PRK10795 1138308008885 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1138308008886 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1138308008887 cell wall shape-determining protein; Provisional; Region: PRK10794 1138308008888 rare lipoprotein A; Provisional; Region: PRK10672 1138308008889 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1138308008890 Sporulation related domain; Region: SPOR; pfam05036 1138308008891 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1138308008892 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1138308008893 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1138308008894 hypothetical protein; Provisional; Region: PRK04998 1138308008895 lipoate-protein ligase B; Provisional; Region: PRK14342 1138308008896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308008897 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308008898 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 1138308008899 substrate binding pocket [chemical binding]; other site 1138308008900 dimerization interface [polypeptide binding]; other site 1138308008901 lipoyl synthase; Provisional; Region: PRK05481 1138308008902 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 1138308008903 FeS/SAM binding site; other site 1138308008904 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 1138308008905 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1138308008906 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 1138308008907 putative active site [active] 1138308008908 catalytic triad [active] 1138308008909 putative dimer interface [polypeptide binding]; other site 1138308008910 chromosome condensation membrane protein; Provisional; Region: PRK14196 1138308008911 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 1138308008912 DNA-binding site [nucleotide binding]; DNA binding site 1138308008913 RNA-binding motif; other site 1138308008914 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 1138308008915 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 1138308008916 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1138308008917 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 1138308008918 B1 nucleotide binding pocket [chemical binding]; other site 1138308008919 B2 nucleotide binding pocket [chemical binding]; other site 1138308008920 CAS motifs; other site 1138308008921 active site 1138308008922 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1138308008923 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1138308008924 Ca binding site [ion binding]; other site 1138308008925 active site 1138308008926 catalytic site [active] 1138308008927 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1138308008928 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1138308008929 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1138308008930 Ca binding site [ion binding]; other site 1138308008931 active site 1138308008932 catalytic site [active] 1138308008933 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1138308008934 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1138308008935 Walker A/P-loop; other site 1138308008936 ATP binding site [chemical binding]; other site 1138308008937 Q-loop/lid; other site 1138308008938 ABC transporter signature motif; other site 1138308008939 Walker B; other site 1138308008940 D-loop; other site 1138308008941 H-loop/switch region; other site 1138308008942 TOBE domain; Region: TOBE_2; pfam08402 1138308008943 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1138308008944 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 1138308008945 dimer interface [polypeptide binding]; other site 1138308008946 conserved gate region; other site 1138308008947 putative PBP binding loops; other site 1138308008948 ABC-ATPase subunit interface; other site 1138308008949 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 1138308008950 dimer interface [polypeptide binding]; other site 1138308008951 conserved gate region; other site 1138308008952 putative PBP binding loops; other site 1138308008953 ABC-ATPase subunit interface; other site 1138308008954 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1138308008955 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1138308008956 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1138308008957 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1138308008958 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1138308008959 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1138308008960 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1138308008961 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1138308008962 NAD binding site [chemical binding]; other site 1138308008963 catalytic Zn binding site [ion binding]; other site 1138308008964 structural Zn binding site [ion binding]; other site 1138308008965 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 1138308008966 Ligand Binding Site [chemical binding]; other site 1138308008967 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1138308008968 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1138308008969 catalytic residue [active] 1138308008970 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1138308008971 catalytic residues [active] 1138308008972 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1138308008973 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308008974 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 1138308008975 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 1138308008976 dimer interface [polypeptide binding]; other site 1138308008977 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1138308008978 catalytic triad [active] 1138308008979 peroxidatic and resolving cysteines [active] 1138308008980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308008981 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 1138308008982 methionine aminotransferase; Validated; Region: PRK09082 1138308008983 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 1138308008984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308008985 homodimer interface [polypeptide binding]; other site 1138308008986 catalytic residue [active] 1138308008987 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 1138308008988 intersubunit interface [polypeptide binding]; other site 1138308008989 active site 1138308008990 Zn2+ binding site [ion binding]; other site 1138308008991 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 1138308008992 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1138308008993 Cupin domain; Region: Cupin_2; cl17218 1138308008994 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1138308008995 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1138308008996 acyl-activating enzyme (AAE) consensus motif; other site 1138308008997 AMP binding site [chemical binding]; other site 1138308008998 MbtH-like protein; Region: MbtH; smart00923 1138308008999 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 1138308009000 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1138308009001 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1138308009002 outer membrane receptor FepA; Provisional; Region: PRK13524 1138308009003 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 1138308009004 N-terminal plug; other site 1138308009005 ligand-binding site [chemical binding]; other site 1138308009006 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 1138308009007 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1138308009008 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1138308009009 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1138308009010 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1138308009011 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1138308009012 Nitrate and nitrite sensing; Region: NIT; pfam08376 1138308009013 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; cl01054 1138308009014 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1138308009015 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308009016 dimer interface [polypeptide binding]; other site 1138308009017 putative CheW interface [polypeptide binding]; other site 1138308009018 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1138308009019 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 1138308009020 ImpE protein; Region: ImpE; pfam07024 1138308009021 PAAR motif; Region: PAAR_motif; pfam05488 1138308009022 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1138308009023 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1138308009024 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1138308009025 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1138308009026 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1138308009027 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1138308009028 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1138308009029 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 1138308009030 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1138308009031 ligand binding site [chemical binding]; other site 1138308009032 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1138308009033 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1138308009034 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1138308009035 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1138308009036 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1138308009037 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1138308009038 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 1138308009039 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1138308009040 PapC N-terminal domain; Region: PapC_N; pfam13954 1138308009041 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1138308009042 PapC C-terminal domain; Region: PapC_C; pfam13953 1138308009043 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1138308009044 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1138308009045 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1138308009046 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308009047 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1138308009048 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 1138308009049 Walker A motif; other site 1138308009050 ATP binding site [chemical binding]; other site 1138308009051 Walker B motif; other site 1138308009052 arginine finger; other site 1138308009053 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 1138308009054 Walker A motif; other site 1138308009055 ATP binding site [chemical binding]; other site 1138308009056 Walker B motif; other site 1138308009057 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1138308009058 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1138308009059 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1138308009060 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1138308009061 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1138308009062 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1138308009063 Fimbrial protein; Region: Fimbrial; pfam00419 1138308009064 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 1138308009065 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1138308009066 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1138308009067 ligand binding site [chemical binding]; other site 1138308009068 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 1138308009069 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1138308009070 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1138308009071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308009072 Coenzyme A binding pocket [chemical binding]; other site 1138308009073 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 1138308009074 active site residue [active] 1138308009075 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1138308009076 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 1138308009077 dimerization interface [polypeptide binding]; other site 1138308009078 putative DNA binding site [nucleotide binding]; other site 1138308009079 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1138308009080 putative Zn2+ binding site [ion binding]; other site 1138308009081 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 1138308009082 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1138308009083 putative substrate translocation pore; other site 1138308009084 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1138308009085 RES domain; Region: RES; cl02411 1138308009086 Predicted transcriptional regulators [Transcription]; Region: COG1733 1138308009087 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1138308009088 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1138308009089 classical (c) SDRs; Region: SDR_c; cd05233 1138308009090 NAD(P) binding site [chemical binding]; other site 1138308009091 active site 1138308009092 Helix-turn-helix domain; Region: HTH_18; pfam12833 1138308009093 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308009094 SnoaL-like domain; Region: SnoaL_2; pfam12680 1138308009095 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1138308009096 Helix-turn-helix domain; Region: HTH_18; pfam12833 1138308009097 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1138308009098 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1138308009099 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1138308009100 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1138308009101 homodimer interface [polypeptide binding]; other site 1138308009102 NADP binding site [chemical binding]; other site 1138308009103 substrate binding site [chemical binding]; other site 1138308009104 ribosome-associated protein; Provisional; Region: PRK11507 1138308009105 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1138308009106 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1138308009107 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308009108 active site turn [active] 1138308009109 phosphorylation site [posttranslational modification] 1138308009110 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 1138308009111 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308009112 DNA binding site [nucleotide binding] 1138308009113 domain linker motif; other site 1138308009114 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1138308009115 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1138308009116 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1138308009117 active site 1138308009118 HIGH motif; other site 1138308009119 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1138308009120 KMSKS motif; other site 1138308009121 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1138308009122 tRNA binding surface [nucleotide binding]; other site 1138308009123 anticodon binding site; other site 1138308009124 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 1138308009125 substrate binding site [chemical binding]; other site 1138308009126 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1138308009127 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1138308009128 putative active site [active] 1138308009129 putative metal binding site [ion binding]; other site 1138308009130 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1138308009131 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1138308009132 ATP-grasp domain; Region: ATP-grasp; pfam02222 1138308009133 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1138308009134 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 1138308009135 homodimer interface [polypeptide binding]; other site 1138308009136 substrate-cofactor binding pocket; other site 1138308009137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308009138 catalytic residue [active] 1138308009139 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1138308009140 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 1138308009141 dimer interface [polypeptide binding]; other site 1138308009142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308009143 catalytic residue [active] 1138308009144 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 1138308009145 FOG: CBS domain [General function prediction only]; Region: COG0517 1138308009146 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1138308009147 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1138308009148 active site residue [active] 1138308009149 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1138308009150 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 1138308009151 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1138308009152 Walker A/P-loop; other site 1138308009153 ATP binding site [chemical binding]; other site 1138308009154 Q-loop/lid; other site 1138308009155 ABC transporter signature motif; other site 1138308009156 Walker B; other site 1138308009157 D-loop; other site 1138308009158 H-loop/switch region; other site 1138308009159 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 1138308009160 active site 1138308009161 catalytic triad [active] 1138308009162 oxyanion hole [active] 1138308009163 switch loop; other site 1138308009164 oxidoreductase; Provisional; Region: PRK08017 1138308009165 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1138308009166 NADP binding site [chemical binding]; other site 1138308009167 active site 1138308009168 steroid binding site; other site 1138308009169 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1138308009170 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 1138308009171 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1138308009172 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 1138308009173 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1138308009174 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 1138308009175 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 1138308009176 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1138308009177 DNA binding residues [nucleotide binding] 1138308009178 dimer interface [polypeptide binding]; other site 1138308009179 copper binding site [ion binding]; other site 1138308009180 copper exporting ATPase; Provisional; Region: copA; PRK10671 1138308009181 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 1138308009182 metal-binding site [ion binding] 1138308009183 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 1138308009184 metal-binding site [ion binding] 1138308009185 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1138308009186 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 1138308009187 motif II; other site 1138308009188 TraB family; Region: TraB; cl12050 1138308009189 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 1138308009190 putative deacylase active site [active] 1138308009191 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1138308009192 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1138308009193 active site 1138308009194 metal binding site [ion binding]; metal-binding site 1138308009195 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1138308009196 putative cation:proton antiport protein; Provisional; Region: PRK10669 1138308009197 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1138308009198 TrkA-N domain; Region: TrkA_N; pfam02254 1138308009199 inosine/guanosine kinase; Provisional; Region: PRK15074 1138308009200 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1138308009201 ferrochelatase; Reviewed; Region: hemH; PRK00035 1138308009202 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 1138308009203 C-terminal domain interface [polypeptide binding]; other site 1138308009204 active site 1138308009205 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 1138308009206 active site 1138308009207 N-terminal domain interface [polypeptide binding]; other site 1138308009208 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1138308009209 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1138308009210 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1138308009211 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1138308009212 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1138308009213 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1138308009214 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1138308009215 adenylate kinase; Reviewed; Region: adk; PRK00279 1138308009216 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 1138308009217 AMP-binding site [chemical binding]; other site 1138308009218 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1138308009219 heat shock protein 90; Provisional; Region: PRK05218 1138308009220 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 1138308009221 ATP binding site [chemical binding]; other site 1138308009222 Mg2+ binding site [ion binding]; other site 1138308009223 G-X-G motif; other site 1138308009224 recombination protein RecR; Reviewed; Region: recR; PRK00076 1138308009225 RecR protein; Region: RecR; pfam02132 1138308009226 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 1138308009227 putative active site [active] 1138308009228 putative metal-binding site [ion binding]; other site 1138308009229 tetramer interface [polypeptide binding]; other site 1138308009230 putative major fimbrial protein SthE; Provisional; Region: PRK15292 1138308009231 Fimbrial protein; Region: Fimbrial; pfam00419 1138308009232 putative fimbrial protein SthD; Provisional; Region: PRK15293 1138308009233 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1138308009234 PapC N-terminal domain; Region: PapC_N; pfam13954 1138308009235 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1138308009236 PapC C-terminal domain; Region: PapC_C; pfam13953 1138308009237 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1138308009238 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1138308009239 putative fimbrial protein SthA; Provisional; Region: PRK15296 1138308009240 hypothetical protein; Validated; Region: PRK00153 1138308009241 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 1138308009242 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1138308009243 Walker A motif; other site 1138308009244 ATP binding site [chemical binding]; other site 1138308009245 Walker B motif; other site 1138308009246 arginine finger; other site 1138308009247 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1138308009248 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 1138308009249 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1138308009250 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1138308009251 active site 1138308009252 hypothetical protein; Provisional; Region: PRK10527 1138308009253 Primosomal replication protein priB and priC; Region: priB_priC; pfam07445 1138308009254 hypothetical protein; Provisional; Region: PRK11281 1138308009255 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1138308009256 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1138308009257 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1138308009258 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1138308009259 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308009260 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1138308009261 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1138308009262 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308009263 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308009264 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 1138308009265 Protein export membrane protein; Region: SecD_SecF; cl14618 1138308009266 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1138308009267 Hha toxicity attenuator; Provisional; Region: PRK10667 1138308009268 gene expression modulator; Provisional; Region: PRK10945 1138308009269 maltose O-acetyltransferase; Provisional; Region: PRK10092 1138308009270 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1138308009271 active site 1138308009272 substrate binding site [chemical binding]; other site 1138308009273 trimer interface [polypeptide binding]; other site 1138308009274 CoA binding site [chemical binding]; other site 1138308009275 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 1138308009276 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1138308009277 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1138308009278 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; cl01054 1138308009279 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1138308009280 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308009281 dimer interface [polypeptide binding]; other site 1138308009282 putative CheW interface [polypeptide binding]; other site 1138308009283 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1138308009284 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1138308009285 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1138308009286 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1138308009287 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1138308009288 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1138308009289 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1138308009290 Walker A/P-loop; other site 1138308009291 ATP binding site [chemical binding]; other site 1138308009292 Q-loop/lid; other site 1138308009293 ABC transporter signature motif; other site 1138308009294 Walker B; other site 1138308009295 D-loop; other site 1138308009296 H-loop/switch region; other site 1138308009297 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 1138308009298 dimer interface [polypeptide binding]; other site 1138308009299 conserved gate region; other site 1138308009300 ABC-ATPase subunit interface; other site 1138308009301 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1138308009302 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1138308009303 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 1138308009304 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308009305 Coenzyme A binding pocket [chemical binding]; other site 1138308009306 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1138308009307 Predicted membrane protein [Function unknown]; Region: COG2364 1138308009308 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1138308009309 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 1138308009310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308009311 DNA-binding site [nucleotide binding]; DNA binding site 1138308009312 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 1138308009313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308009314 homodimer interface [polypeptide binding]; other site 1138308009315 catalytic residue [active] 1138308009316 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 1138308009317 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 1138308009318 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 1138308009319 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 1138308009320 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1138308009321 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 1138308009322 CT1975-like protein; Region: Cas_CT1975; pfam09344 1138308009323 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 1138308009324 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 1138308009325 helicase Cas3; Provisional; Region: PRK09694 1138308009326 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1138308009327 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 1138308009328 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1138308009329 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 1138308009330 DNA binding site [nucleotide binding] 1138308009331 active site 1138308009332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1138308009333 acyl-CoA thioesterase II; Provisional; Region: PRK10526 1138308009334 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1138308009335 active site 1138308009336 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1138308009337 catalytic triad [active] 1138308009338 dimer interface [polypeptide binding]; other site 1138308009339 ammonium transporter; Provisional; Region: PRK10666 1138308009340 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 1138308009341 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1138308009342 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 1138308009343 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1138308009344 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308009345 Walker A/P-loop; other site 1138308009346 ATP binding site [chemical binding]; other site 1138308009347 Q-loop/lid; other site 1138308009348 ABC transporter signature motif; other site 1138308009349 Walker B; other site 1138308009350 D-loop; other site 1138308009351 H-loop/switch region; other site 1138308009352 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1138308009353 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1138308009354 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308009355 Walker A/P-loop; other site 1138308009356 ATP binding site [chemical binding]; other site 1138308009357 Q-loop/lid; other site 1138308009358 ABC transporter signature motif; other site 1138308009359 Walker B; other site 1138308009360 D-loop; other site 1138308009361 H-loop/switch region; other site 1138308009362 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1138308009363 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 1138308009364 putative DNA binding site [nucleotide binding]; other site 1138308009365 putative Zn2+ binding site [ion binding]; other site 1138308009366 AsnC family; Region: AsnC_trans_reg; pfam01037 1138308009367 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1138308009368 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 1138308009369 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1138308009370 catalytic residue [active] 1138308009371 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1138308009372 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 1138308009373 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 1138308009374 active site 1138308009375 motif I; other site 1138308009376 motif II; other site 1138308009377 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 1138308009378 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 1138308009379 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 1138308009380 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; cl01709 1138308009381 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 1138308009382 Ligand Binding Site [chemical binding]; other site 1138308009383 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1138308009384 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 1138308009385 active site 1138308009386 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1138308009387 periplasmic folding chaperone; Provisional; Region: PRK10788 1138308009388 SurA N-terminal domain; Region: SurA_N_3; cl07813 1138308009389 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1138308009390 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 1138308009391 IHF dimer interface [polypeptide binding]; other site 1138308009392 IHF - DNA interface [nucleotide binding]; other site 1138308009393 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 1138308009394 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1138308009395 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1138308009396 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 1138308009397 Walker A motif; other site 1138308009398 ATP binding site [chemical binding]; other site 1138308009399 Walker B motif; other site 1138308009400 arginine finger; other site 1138308009401 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1138308009402 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1138308009403 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1138308009404 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 1138308009405 Walker A motif; other site 1138308009406 ATP binding site [chemical binding]; other site 1138308009407 Walker B motif; other site 1138308009408 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1138308009409 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1138308009410 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1138308009411 oligomer interface [polypeptide binding]; other site 1138308009412 active site residues [active] 1138308009413 trigger factor; Provisional; Region: tig; PRK01490 1138308009414 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1138308009415 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1138308009416 transcriptional regulator BolA; Provisional; Region: PRK11628 1138308009417 hypothetical protein; Provisional; Region: PRK11627 1138308009418 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1138308009419 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1138308009420 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 1138308009421 putative substrate translocation pore; other site 1138308009422 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 1138308009423 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1138308009424 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 1138308009425 nucleotide binding site [chemical binding]; other site 1138308009426 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1138308009427 SBD interface [polypeptide binding]; other site 1138308009428 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1138308009429 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1138308009430 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1138308009431 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1138308009432 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 1138308009433 D-pathway; other site 1138308009434 Putative ubiquinol binding site [chemical binding]; other site 1138308009435 Low-spin heme (heme b) binding site [chemical binding]; other site 1138308009436 Putative water exit pathway; other site 1138308009437 Binuclear center (heme o3/CuB) [ion binding]; other site 1138308009438 K-pathway; other site 1138308009439 Putative proton exit pathway; other site 1138308009440 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 1138308009441 Subunit I/III interface [polypeptide binding]; other site 1138308009442 Subunit III/IV interface [polypeptide binding]; other site 1138308009443 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 1138308009444 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1138308009445 UbiA prenyltransferase family; Region: UbiA; pfam01040 1138308009446 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 1138308009447 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1138308009448 putative substrate translocation pore; other site 1138308009449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1138308009450 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1138308009451 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1138308009452 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1138308009453 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1138308009454 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 1138308009455 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1138308009456 conserved cys residue [active] 1138308009457 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1138308009458 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1138308009459 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1138308009460 Ligand Binding Site [chemical binding]; other site 1138308009461 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 1138308009462 active site residue [active] 1138308009463 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1138308009464 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1138308009465 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1138308009466 substrate binding pocket [chemical binding]; other site 1138308009467 chain length determination region; other site 1138308009468 substrate-Mg2+ binding site; other site 1138308009469 catalytic residues [active] 1138308009470 aspartate-rich region 1; other site 1138308009471 active site lid residues [active] 1138308009472 aspartate-rich region 2; other site 1138308009473 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1138308009474 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 1138308009475 TPP-binding site; other site 1138308009476 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 1138308009477 PYR/PP interface [polypeptide binding]; other site 1138308009478 dimer interface [polypeptide binding]; other site 1138308009479 TPP binding site [chemical binding]; other site 1138308009480 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1138308009481 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 1138308009482 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1138308009483 active site 1138308009484 catalytic tetrad [active] 1138308009485 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1138308009486 tetramer interfaces [polypeptide binding]; other site 1138308009487 binuclear metal-binding site [ion binding]; other site 1138308009488 thiamine monophosphate kinase; Provisional; Region: PRK05731 1138308009489 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 1138308009490 ATP binding site [chemical binding]; other site 1138308009491 dimerization interface [polypeptide binding]; other site 1138308009492 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1138308009493 putative RNA binding site [nucleotide binding]; other site 1138308009494 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 1138308009495 homopentamer interface [polypeptide binding]; other site 1138308009496 active site 1138308009497 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1138308009498 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 1138308009499 catalytic motif [active] 1138308009500 Zn binding site [ion binding]; other site 1138308009501 RibD C-terminal domain; Region: RibD_C; cl17279 1138308009502 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1138308009503 ATP cone domain; Region: ATP-cone; pfam03477 1138308009504 hypothetical protein; Provisional; Region: PRK11530 1138308009505 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 1138308009506 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1138308009507 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1138308009508 Protein export membrane protein; Region: SecD_SecF; pfam02355 1138308009509 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1138308009510 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1138308009511 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1138308009512 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1138308009513 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1138308009514 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1138308009515 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1138308009516 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1138308009517 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1138308009518 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 1138308009519 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 1138308009520 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1138308009521 maltodextrin glucosidase; Provisional; Region: PRK10785 1138308009522 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1138308009523 homodimer interface [polypeptide binding]; other site 1138308009524 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1138308009525 active site 1138308009526 homodimer interface [polypeptide binding]; other site 1138308009527 catalytic site [active] 1138308009528 putative proline-specific permease; Provisional; Region: proY; PRK10580 1138308009529 Spore germination protein; Region: Spore_permease; cl17796 1138308009530 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 1138308009531 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 1138308009532 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1138308009533 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 1138308009534 putative active site [active] 1138308009535 heme pocket [chemical binding]; other site 1138308009536 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 1138308009537 dimer interface [polypeptide binding]; other site 1138308009538 phosphorylation site [posttranslational modification] 1138308009539 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 1138308009540 ATP binding site [chemical binding]; other site 1138308009541 Mg2+ binding site [ion binding]; other site 1138308009542 G-X-G motif; other site 1138308009543 transcriptional regulator PhoB; Provisional; Region: PRK10161 1138308009544 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 1138308009545 active site 1138308009546 phosphorylation site [posttranslational modification] 1138308009547 intermolecular recognition site; other site 1138308009548 dimerization interface [polypeptide binding]; other site 1138308009549 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 1138308009550 DNA binding site [nucleotide binding] 1138308009551 exonuclease subunit SbcD; Provisional; Region: PRK10966 1138308009552 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1138308009553 active site 1138308009554 metal binding site [ion binding]; metal-binding site 1138308009555 DNA binding site [nucleotide binding] 1138308009556 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1138308009557 exonuclease subunit SbcC; Provisional; Region: PRK10246 1138308009558 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308009559 Walker A/P-loop; other site 1138308009560 ATP binding site [chemical binding]; other site 1138308009561 Q-loop/lid; other site 1138308009562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308009563 ABC transporter signature motif; other site 1138308009564 Walker B; other site 1138308009565 D-loop; other site 1138308009566 H-loop/switch region; other site 1138308009567 fructokinase; Reviewed; Region: PRK09557 1138308009568 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1138308009569 nucleotide binding site [chemical binding]; other site 1138308009570 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1138308009571 hypothetical protein; Provisional; Region: PRK10579 1138308009572 hypothetical protein; Provisional; Region: PRK10481 1138308009573 hypothetical protein; Provisional; Region: PRK10380 1138308009574 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1138308009575 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 1138308009576 ADP binding site [chemical binding]; other site 1138308009577 magnesium binding site [ion binding]; other site 1138308009578 putative shikimate binding site; other site 1138308009579 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1138308009580 hypothetical protein; Validated; Region: PRK00124 1138308009581 Predicted membrane protein [Function unknown]; Region: COG2323 1138308009582 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1138308009583 pyrroline-5-carboxylate reductase; Region: PLN02688 1138308009584 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1138308009585 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 1138308009586 putative substrate translocation pore; other site 1138308009587 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 1138308009588 anti-RssB factor; Provisional; Region: PRK10244 1138308009589 drug efflux system protein MdtG; Provisional; Region: PRK09874 1138308009590 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 1138308009591 putative substrate translocation pore; other site 1138308009592 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1138308009593 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1138308009594 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1138308009595 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1138308009596 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 1138308009597 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 1138308009598 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1138308009599 microcin B17 transporter; Reviewed; Region: PRK11098 1138308009600 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 1138308009601 Isochorismatase family; Region: Isochorismatase; pfam00857 1138308009602 catalytic triad [active] 1138308009603 conserved cis-peptide bond; other site 1138308009604 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 1138308009605 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1138308009606 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 1138308009607 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 1138308009608 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1138308009609 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1138308009610 Competence-damaged protein; Region: CinA; pfam02464 1138308009611 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; cd00384 1138308009612 dimer interface [polypeptide binding]; other site 1138308009613 active site 1138308009614 Schiff base residues; other site 1138308009615 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1138308009616 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1138308009617 putative acyl-acceptor binding pocket; other site 1138308009618 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1138308009619 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1138308009620 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1138308009621 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1138308009622 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 1138308009623 dimer interface [polypeptide binding]; other site 1138308009624 conserved gate region; other site 1138308009625 putative PBP binding loops; other site 1138308009626 ABC-ATPase subunit interface; other site 1138308009627 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 1138308009628 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1138308009629 Walker A/P-loop; other site 1138308009630 ATP binding site [chemical binding]; other site 1138308009631 Q-loop/lid; other site 1138308009632 ABC transporter signature motif; other site 1138308009633 Walker B; other site 1138308009634 D-loop; other site 1138308009635 H-loop/switch region; other site 1138308009636 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1138308009637 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 1138308009638 substrate binding pocket [chemical binding]; other site 1138308009639 membrane-bound complex binding site; other site 1138308009640 hinge residues; other site 1138308009641 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 1138308009642 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1138308009643 S-methylmethionine transporter; Provisional; Region: PRK11387 1138308009644 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1138308009645 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1138308009646 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 1138308009647 4Fe-4S binding domain; Region: Fer4; pfam00037 1138308009648 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 1138308009649 [4Fe-4S] binding site [ion binding]; other site 1138308009650 molybdopterin cofactor binding site; other site 1138308009651 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 1138308009652 molybdopterin cofactor binding site; other site 1138308009653 Uncharacterized conserved protein [Function unknown]; Region: COG2427 1138308009654 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1138308009655 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1138308009656 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1138308009657 Predicted ATPase [General function prediction only]; Region: COG1485 1138308009658 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1138308009659 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1138308009660 putative acyl-acceptor binding pocket; other site 1138308009661 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1138308009662 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1138308009663 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1138308009664 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1138308009665 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 1138308009666 dimer interface [polypeptide binding]; other site 1138308009667 ADP-ribose binding site [chemical binding]; other site 1138308009668 active site 1138308009669 nudix motif; other site 1138308009670 metal binding site [ion binding]; metal-binding site 1138308009671 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 1138308009672 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1138308009673 EAL domain; Region: EAL; pfam00563 1138308009674 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_cladeA; cd00883 1138308009675 active site clefts [active] 1138308009676 zinc binding site [ion binding]; other site 1138308009677 dimer interface [polypeptide binding]; other site 1138308009678 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1138308009679 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1138308009680 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1138308009681 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1138308009682 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1138308009683 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1138308009684 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 1138308009685 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1138308009686 Trp docking motif [polypeptide binding]; other site 1138308009687 putative active site [active] 1138308009688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308009689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308009690 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 1138308009691 putative effector binding pocket; other site 1138308009692 dimerization interface [polypeptide binding]; other site 1138308009693 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1138308009694 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1138308009695 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308009696 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308009697 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 1138308009698 dimerization interface [polypeptide binding]; other site 1138308009699 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; pfam05870 1138308009700 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1138308009701 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1138308009702 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1138308009703 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1138308009704 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1138308009705 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 1138308009706 dimer interface [polypeptide binding]; other site 1138308009707 conserved gate region; other site 1138308009708 putative PBP binding loops; other site 1138308009709 ABC-ATPase subunit interface; other site 1138308009710 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1138308009711 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1138308009712 Walker A/P-loop; other site 1138308009713 ATP binding site [chemical binding]; other site 1138308009714 Q-loop/lid; other site 1138308009715 ABC transporter signature motif; other site 1138308009716 Walker B; other site 1138308009717 D-loop; other site 1138308009718 H-loop/switch region; other site 1138308009719 NIL domain; Region: NIL; pfam09383 1138308009720 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1138308009721 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1138308009722 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 1138308009723 putative substrate translocation pore; other site 1138308009724 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1138308009725 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1138308009726 Metal-binding active site; metal-binding site 1138308009727 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1138308009728 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1138308009729 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1138308009730 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1138308009731 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1138308009732 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1138308009733 PYR/PP interface [polypeptide binding]; other site 1138308009734 dimer interface [polypeptide binding]; other site 1138308009735 TPP binding site [chemical binding]; other site 1138308009736 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1138308009737 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 1138308009738 TPP-binding site; other site 1138308009739 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1138308009740 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1138308009741 substrate binding site [chemical binding]; other site 1138308009742 ATP binding site [chemical binding]; other site 1138308009743 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1138308009744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1138308009745 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1138308009746 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1138308009747 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 1138308009748 putative active site [active] 1138308009749 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1138308009750 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1138308009751 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1138308009752 tetrameric interface [polypeptide binding]; other site 1138308009753 NAD binding site [chemical binding]; other site 1138308009754 catalytic residues [active] 1138308009755 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 1138308009756 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1138308009757 malate dehydrogenase; Provisional; Region: PRK13529 1138308009758 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1138308009759 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1138308009760 NAD(P) binding site [chemical binding]; other site 1138308009761 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 1138308009762 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 1138308009763 putative substrate translocation pore; other site 1138308009764 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1138308009765 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1138308009766 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1138308009767 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1138308009768 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 1138308009769 lac repressor; Reviewed; Region: lacI; PRK09526 1138308009770 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308009771 DNA binding site [nucleotide binding] 1138308009772 domain linker motif; other site 1138308009773 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 1138308009774 ligand binding site [chemical binding]; other site 1138308009775 dimerization interface (open form) [polypeptide binding]; other site 1138308009776 dimerization interface (closed form) [polypeptide binding]; other site 1138308009777 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1138308009778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1138308009779 NAD(P) binding site [chemical binding]; other site 1138308009780 active site 1138308009781 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1138308009782 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308009783 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 1138308009784 homotrimer interaction site [polypeptide binding]; other site 1138308009785 putative active site [active] 1138308009786 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1138308009787 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1138308009788 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1138308009789 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1138308009790 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1138308009791 conserved cys residue [active] 1138308009792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308009793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308009794 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 1138308009795 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 1138308009796 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 1138308009797 active site 1138308009798 dimer interface [polypeptide binding]; other site 1138308009799 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1138308009800 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 1138308009801 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1138308009802 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1138308009803 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1138308009804 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1138308009805 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1138308009806 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 1138308009807 FeS/SAM binding site; other site 1138308009808 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1138308009809 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1138308009810 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1138308009811 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1138308009812 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 1138308009813 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1138308009814 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1138308009815 peptide binding site [polypeptide binding]; other site 1138308009816 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 1138308009817 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1138308009818 metal binding site [ion binding]; metal-binding site 1138308009819 dimer interface [polypeptide binding]; other site 1138308009820 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 1138308009821 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1138308009822 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1138308009823 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1138308009824 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1138308009825 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 1138308009826 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1138308009827 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 1138308009828 ATP binding site [chemical binding]; other site 1138308009829 putative Mg++ binding site [ion binding]; other site 1138308009830 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 1138308009831 nucleotide binding region [chemical binding]; other site 1138308009832 ATP-binding site [chemical binding]; other site 1138308009833 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 1138308009834 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 1138308009835 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 1138308009836 active site 1138308009837 Int/Topo IB signature motif; other site 1138308009838 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1138308009839 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1138308009840 putative catalytic cysteine [active] 1138308009841 gamma-glutamyl kinase; Provisional; Region: PRK05429 1138308009842 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 1138308009843 nucleotide binding site [chemical binding]; other site 1138308009844 homotetrameric interface [polypeptide binding]; other site 1138308009845 putative phosphate binding site [ion binding]; other site 1138308009846 putative allosteric binding site; other site 1138308009847 PUA domain; Region: PUA; pfam01472 1138308009848 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1138308009849 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 1138308009850 trimer interface [polypeptide binding]; other site 1138308009851 eyelet of channel; other site 1138308009852 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 1138308009853 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 1138308009854 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1138308009855 active site 1138308009856 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1138308009857 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1138308009858 metal binding site [ion binding]; metal-binding site 1138308009859 dimer interface [polypeptide binding]; other site 1138308009860 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 1138308009861 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1138308009862 hypothetical protein; Reviewed; Region: PRK09588 1138308009863 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 1138308009864 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1138308009865 active site 1138308009866 DNA polymerase IV; Validated; Region: PRK02406 1138308009867 DNA binding site [nucleotide binding] 1138308009868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1138308009869 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1138308009870 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1138308009871 putative active site [active] 1138308009872 putative dimer interface [polypeptide binding]; other site 1138308009873 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 1138308009874 dimer interface [polypeptide binding]; other site 1138308009875 active site 1138308009876 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1138308009877 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1138308009878 active site 1138308009879 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1138308009880 C-N hydrolase family amidase; Provisional; Region: PRK10438 1138308009881 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1138308009882 putative active site [active] 1138308009883 catalytic triad [active] 1138308009884 dimer interface [polypeptide binding]; other site 1138308009885 multimer interface [polypeptide binding]; other site 1138308009886 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1138308009887 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 1138308009888 active site 1138308009889 catalytic site [active] 1138308009890 substrate binding site [chemical binding]; other site 1138308009891 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1138308009892 RNA/DNA hybrid binding site [nucleotide binding]; other site 1138308009893 active site 1138308009894 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 1138308009895 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 1138308009896 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1138308009897 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 1138308009898 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1138308009899 catalytic residue [active] 1138308009900 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1138308009901 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1138308009902 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1138308009903 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1138308009904 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1138308009905 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 1138308009906 S-adenosylmethionine binding site [chemical binding]; other site 1138308009907 hypothetical protein; Provisional; Region: PRK05421 1138308009908 putative catalytic site [active] 1138308009909 putative metal binding site [ion binding]; other site 1138308009910 putative phosphate binding site [ion binding]; other site 1138308009911 putative catalytic site [active] 1138308009912 putative phosphate binding site [ion binding]; other site 1138308009913 putative metal binding site [ion binding]; other site 1138308009914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308009915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308009916 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 1138308009917 putative effector binding pocket; other site 1138308009918 dimerization interface [polypeptide binding]; other site 1138308009919 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 1138308009920 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1138308009921 active site 1138308009922 catalytic tetrad [active] 1138308009923 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1138308009924 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 1138308009925 active site 1138308009926 motif I; other site 1138308009927 motif II; other site 1138308009928 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1138308009929 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1138308009930 Walker A/P-loop; other site 1138308009931 ATP binding site [chemical binding]; other site 1138308009932 Q-loop/lid; other site 1138308009933 ABC transporter signature motif; other site 1138308009934 Walker B; other site 1138308009935 D-loop; other site 1138308009936 H-loop/switch region; other site 1138308009937 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1138308009938 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 1138308009939 dimer interface [polypeptide binding]; other site 1138308009940 conserved gate region; other site 1138308009941 ABC-ATPase subunit interface; other site 1138308009942 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1138308009943 lipoprotein, YaeC family; Region: TIGR00363 1138308009944 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 1138308009945 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1138308009946 homodimer interaction site [polypeptide binding]; other site 1138308009947 cofactor binding site; other site 1138308009948 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1138308009949 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 1138308009950 dimer interface [polypeptide binding]; other site 1138308009951 motif 1; other site 1138308009952 active site 1138308009953 motif 2; other site 1138308009954 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 1138308009955 putative deacylase active site [active] 1138308009956 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 1138308009957 active site 1138308009958 motif 3; other site 1138308009959 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 1138308009960 anticodon binding site; other site 1138308009961 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 1138308009962 NlpE N-terminal domain; Region: NlpE; pfam04170 1138308009963 hypothetical protein; Provisional; Region: PRK09256 1138308009964 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1138308009965 YaeQ protein; Region: YaeQ; pfam07152 1138308009966 hypothetical protein; Provisional; Region: PRK04964 1138308009967 Rho-binding antiterminator; Provisional; Region: PRK11625 1138308009968 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1138308009969 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1138308009970 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 1138308009971 Ligand Binding Site [chemical binding]; other site 1138308009972 TilS substrate binding domain; Region: TilS; pfam09179 1138308009973 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1138308009974 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_1; cd08352 1138308009975 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1138308009976 putative metal binding site [ion binding]; other site 1138308009977 lysine decarboxylase LdcC; Provisional; Region: PRK15399 1138308009978 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1138308009979 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1138308009980 homodimer interface [polypeptide binding]; other site 1138308009981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308009982 catalytic residue [active] 1138308009983 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1138308009984 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 1138308009985 Glycoside hydrolase family 19 chitinase domain. Chitinases are enzymes that catalyze the hydrolysis of the beta-1,4-N-acetyl-D-glucosamine linkages in chitin polymers. Family 19 chitinases are found primarily in plants (classes I, III, and IV), but some...; Region: chitinase_glyco_hydro_19; cd00325 1138308009986 putative sugar binding site [chemical binding]; other site 1138308009987 catalytic residues [active] 1138308009988 PKD domain; Region: PKD; pfam00801 1138308009989 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 1138308009990 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1138308009991 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1138308009992 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1138308009993 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1138308009994 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1138308009995 putative active site [active] 1138308009996 putative PHP Thumb interface [polypeptide binding]; other site 1138308009997 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 1138308009998 generic binding surface II; other site 1138308009999 generic binding surface I; other site 1138308010000 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1138308010001 RNA/DNA hybrid binding site [nucleotide binding]; other site 1138308010002 active site 1138308010003 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1138308010004 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1138308010005 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1138308010006 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 1138308010007 active site 1138308010008 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 1138308010009 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1138308010010 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1138308010011 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 1138308010012 trimer interface [polypeptide binding]; other site 1138308010013 active site 1138308010014 UDP-GlcNAc binding site [chemical binding]; other site 1138308010015 lipid binding site [chemical binding]; lipid-binding site 1138308010016 periplasmic chaperone; Provisional; Region: PRK10780 1138308010017 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1138308010018 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1138308010019 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1138308010020 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1138308010021 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1138308010022 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1138308010023 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1138308010024 Surface antigen; Region: Bac_surface_Ag; pfam01103 1138308010025 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1138308010026 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 1138308010027 active site 1138308010028 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1138308010029 protein binding site [polypeptide binding]; other site 1138308010030 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1138308010031 protein binding site [polypeptide binding]; other site 1138308010032 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 1138308010033 putative substrate binding region [chemical binding]; other site 1138308010034 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1138308010035 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1138308010036 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1138308010037 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1138308010038 catalytic residue [active] 1138308010039 putative FPP diphosphate binding site; other site 1138308010040 putative FPP binding hydrophobic cleft; other site 1138308010041 dimer interface [polypeptide binding]; other site 1138308010042 putative IPP diphosphate binding site; other site 1138308010043 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1138308010044 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1138308010045 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1138308010046 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1138308010047 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1138308010048 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 1138308010049 hinge region; other site 1138308010050 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 1138308010051 putative nucleotide binding site [chemical binding]; other site 1138308010052 uridine monophosphate binding site [chemical binding]; other site 1138308010053 homohexameric interface [polypeptide binding]; other site 1138308010054 elongation factor Ts; Provisional; Region: tsf; PRK09377 1138308010055 UBA/TS-N domain; Region: UBA; pfam00627 1138308010056 Elongation factor TS; Region: EF_TS; pfam00889 1138308010057 Elongation factor TS; Region: EF_TS; pfam00889 1138308010058 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 1138308010059 rRNA interaction site [nucleotide binding]; other site 1138308010060 S8 interaction site; other site 1138308010061 putative laminin-1 binding site; other site 1138308010062 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 1138308010063 active site 1138308010064 PII uridylyl-transferase; Provisional; Region: PRK05007 1138308010065 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1138308010066 metal binding triad; other site 1138308010067 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1138308010068 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1138308010069 Zn2+ binding site [ion binding]; other site 1138308010070 Mg2+ binding site [ion binding]; other site 1138308010071 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 1138308010072 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 1138308010073 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1138308010074 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 1138308010075 trimer interface [polypeptide binding]; other site 1138308010076 active site 1138308010077 substrate binding site [chemical binding]; other site 1138308010078 CoA binding site [chemical binding]; other site 1138308010079 hypothetical protein; Provisional; Region: PRK13677 1138308010080 serine endoprotease; Provisional; Region: PRK10942 1138308010081 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1138308010082 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 1138308010083 protein binding site [polypeptide binding]; other site 1138308010084 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 1138308010085 protein binding site [polypeptide binding]; other site 1138308010086 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 1138308010087 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1138308010088 Zn2+ binding site [ion binding]; other site 1138308010089 Mg2+ binding site [ion binding]; other site 1138308010090 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1138308010091 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1138308010092 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1138308010093 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1138308010094 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 1138308010095 cobalamin binding residues [chemical binding]; other site 1138308010096 putative BtuC binding residues; other site 1138308010097 dimer interface [polypeptide binding]; other site 1138308010098 hypothetical protein; Provisional; Region: PRK10578 1138308010099 UPF0126 domain; Region: UPF0126; pfam03458 1138308010100 UPF0126 domain; Region: UPF0126; pfam03458 1138308010101 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1138308010102 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1138308010103 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 1138308010104 Cl- selectivity filter; other site 1138308010105 Cl- binding residues [ion binding]; other site 1138308010106 pore gating glutamate residue; other site 1138308010107 dimer interface [polypeptide binding]; other site 1138308010108 H+/Cl- coupling transport residue; other site 1138308010109 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1138308010110 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 1138308010111 inhibitor-cofactor binding pocket; inhibition site 1138308010112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308010113 catalytic residue [active] 1138308010114 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1138308010115 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 1138308010116 ABC-ATPase subunit interface; other site 1138308010117 dimer interface [polypeptide binding]; other site 1138308010118 putative PBP binding regions; other site 1138308010119 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 1138308010120 ABC-ATPase subunit interface; other site 1138308010121 dimer interface [polypeptide binding]; other site 1138308010122 putative PBP binding regions; other site 1138308010123 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1138308010124 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1138308010125 siderophore binding site; other site 1138308010126 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 1138308010127 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1138308010128 Walker A/P-loop; other site 1138308010129 ATP binding site [chemical binding]; other site 1138308010130 Q-loop/lid; other site 1138308010131 ABC transporter signature motif; other site 1138308010132 Walker B; other site 1138308010133 D-loop; other site 1138308010134 H-loop/switch region; other site 1138308010135 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1138308010136 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 1138308010137 N-terminal plug; other site 1138308010138 ligand-binding site [chemical binding]; other site 1138308010139 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 1138308010140 Transglycosylase; Region: Transgly; pfam00912 1138308010141 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1138308010142 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 1138308010143 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 1138308010144 ATP binding site [chemical binding]; other site 1138308010145 putative Mg++ binding site [ion binding]; other site 1138308010146 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 1138308010147 nucleotide binding region [chemical binding]; other site 1138308010148 ATP-binding site [chemical binding]; other site 1138308010149 Helicase associated domain (HA2); Region: HA2; pfam04408 1138308010150 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1138308010151 2'-5' RNA ligase; Provisional; Region: PRK15124 1138308010152 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1138308010153 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1138308010154 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 1138308010155 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1138308010156 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 1138308010157 active site 1138308010158 HIGH motif; other site 1138308010159 KMSKS motif; other site 1138308010160 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 1138308010161 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1138308010162 active site 1138308010163 NTP binding site [chemical binding]; other site 1138308010164 metal binding triad [ion binding]; metal-binding site 1138308010165 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1138308010166 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1138308010167 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 1138308010168 catalytic center binding site [active] 1138308010169 ATP binding site [chemical binding]; other site 1138308010170 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 1138308010171 oligomerization interface [polypeptide binding]; other site 1138308010172 active site 1138308010173 metal binding site [ion binding]; metal-binding site 1138308010174 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1138308010175 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1138308010176 active site 1138308010177 ATP-binding site [chemical binding]; other site 1138308010178 pantoate-binding site; other site 1138308010179 HXXH motif; other site 1138308010180 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1138308010181 tetramerization interface [polypeptide binding]; other site 1138308010182 active site 1138308010183 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1138308010184 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 1138308010185 putative active site [active] 1138308010186 putative metal binding site [ion binding]; other site 1138308010187 inner membrane transport permease; Provisional; Region: PRK15066 1138308010188 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1138308010189 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1138308010190 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1138308010191 Walker A/P-loop; other site 1138308010192 ATP binding site [chemical binding]; other site 1138308010193 Q-loop/lid; other site 1138308010194 ABC transporter signature motif; other site 1138308010195 Walker B; other site 1138308010196 D-loop; other site 1138308010197 H-loop/switch region; other site 1138308010198 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_cladeA; cd00883 1138308010199 active site clefts [active] 1138308010200 zinc binding site [ion binding]; other site 1138308010201 dimer interface [polypeptide binding]; other site 1138308010202 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1138308010203 active site 1138308010204 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1138308010205 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1138308010206 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1138308010207 Trp docking motif [polypeptide binding]; other site 1138308010208 putative active site [active] 1138308010209 multicopper oxidase; Provisional; Region: PRK10965 1138308010210 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1138308010211 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1138308010212 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 1138308010213 spermidine synthase; Provisional; Region: PRK00811 1138308010214 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 1138308010215 S-adenosylmethionine binding site [chemical binding]; other site 1138308010216 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1138308010217 hypothetical protein; Provisional; Region: PRK05248 1138308010218 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1138308010219 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 1138308010220 substrate binding site [chemical binding]; other site 1138308010221 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1138308010222 substrate binding site [chemical binding]; other site 1138308010223 ligand binding site [chemical binding]; other site 1138308010224 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1138308010225 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1138308010226 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 1138308010227 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 1138308010228 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1138308010229 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1138308010230 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308010231 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1138308010232 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1138308010233 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 1138308010234 E3 interaction surface; other site 1138308010235 lipoyl attachment site [posttranslational modification]; other site 1138308010236 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 1138308010237 E3 interaction surface; other site 1138308010238 lipoyl attachment site [posttranslational modification]; other site 1138308010239 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 1138308010240 E3 interaction surface; other site 1138308010241 lipoyl attachment site [posttranslational modification]; other site 1138308010242 e3 binding domain; Region: E3_binding; pfam02817 1138308010243 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1138308010244 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1138308010245 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 1138308010246 dimer interface [polypeptide binding]; other site 1138308010247 TPP-binding site [chemical binding]; other site 1138308010248 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1138308010249 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308010250 DNA-binding site [nucleotide binding]; DNA binding site 1138308010251 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1138308010252 aromatic amino acid transporter; Provisional; Region: PRK10238 1138308010253 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1138308010254 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 1138308010255 putative substrate translocation pore; other site 1138308010256 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 1138308010257 active site 1138308010258 regulatory protein AmpE; Provisional; Region: PRK10987 1138308010259 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1138308010260 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 1138308010261 amidase catalytic site [active] 1138308010262 substrate binding site [chemical binding]; other site 1138308010263 Zn binding residues [ion binding]; other site 1138308010264 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 1138308010265 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 1138308010266 dimerization interface [polypeptide binding]; other site 1138308010267 active site 1138308010268 putative major pilin subunit; Provisional; Region: PRK10574 1138308010269 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1138308010270 Pilin (bacterial filament); Region: Pilin; pfam00114 1138308010271 hypothetical protein; Provisional; Region: PRK10436 1138308010272 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1138308010273 Walker A motif; other site 1138308010274 ATP binding site [chemical binding]; other site 1138308010275 Walker B motif; other site 1138308010276 type IV pilin biogenesis protein; Provisional; Region: PRK10573 1138308010277 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1138308010278 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1138308010279 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 1138308010280 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 1138308010281 active site 1138308010282 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1138308010283 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 1138308010284 CoA-binding site [chemical binding]; other site 1138308010285 ATP-binding [chemical binding]; other site 1138308010286 hypothetical protein; Provisional; Region: PRK05287 1138308010287 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1138308010288 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 1138308010289 active site 1138308010290 8-oxo-dGMP binding site [chemical binding]; other site 1138308010291 nudix motif; other site 1138308010292 metal binding site [ion binding]; metal-binding site 1138308010293 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1138308010294 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1138308010295 SEC-C motif; Region: SEC-C; pfam02810 1138308010296 SecA regulator SecM; Provisional; Region: PRK02943 1138308010297 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1138308010298 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1138308010299 cell division protein FtsZ; Validated; Region: PRK09330 1138308010300 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 1138308010301 nucleotide binding site [chemical binding]; other site 1138308010302 SulA interaction site; other site 1138308010303 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1138308010304 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1138308010305 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1138308010306 Cell division protein FtsA; Region: FtsA; pfam14450 1138308010307 cell division protein FtsQ; Provisional; Region: PRK10775 1138308010308 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1138308010309 Cell division protein FtsQ; Region: FtsQ; pfam03799 1138308010310 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1138308010311 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1138308010312 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1138308010313 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1138308010314 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1138308010315 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1138308010316 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1138308010317 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 1138308010318 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 1138308010319 active site 1138308010320 homodimer interface [polypeptide binding]; other site 1138308010321 cell division protein FtsW; Provisional; Region: PRK10774 1138308010322 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1138308010323 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1138308010324 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1138308010325 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 1138308010326 Mg++ binding site [ion binding]; other site 1138308010327 putative catalytic motif [active] 1138308010328 putative substrate binding site [chemical binding]; other site 1138308010329 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1138308010330 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1138308010331 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1138308010332 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1138308010333 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1138308010334 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1138308010335 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1138308010336 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1138308010337 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1138308010338 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1138308010339 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1138308010340 cell division protein FtsL; Provisional; Region: PRK10772 1138308010341 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 1138308010342 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1138308010343 cell division protein MraZ; Reviewed; Region: PRK00326 1138308010344 MraZ protein; Region: MraZ; pfam02381 1138308010345 MraZ protein; Region: MraZ; pfam02381 1138308010346 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1138308010347 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308010348 DNA binding site [nucleotide binding] 1138308010349 domain linker motif; other site 1138308010350 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1138308010351 dimerization interface [polypeptide binding]; other site 1138308010352 ligand binding site [chemical binding]; other site 1138308010353 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1138308010354 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1138308010355 putative valine binding site [chemical binding]; other site 1138308010356 dimer interface [polypeptide binding]; other site 1138308010357 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1138308010358 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 1138308010359 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1138308010360 PYR/PP interface [polypeptide binding]; other site 1138308010361 dimer interface [polypeptide binding]; other site 1138308010362 TPP binding site [chemical binding]; other site 1138308010363 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1138308010364 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 1138308010365 TPP-binding site [chemical binding]; other site 1138308010366 dimer interface [polypeptide binding]; other site 1138308010367 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1138308010368 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308010369 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 1138308010370 putative substrate binding pocket [chemical binding]; other site 1138308010371 putative dimerization interface [polypeptide binding]; other site 1138308010372 2-isopropylmalate synthase; Validated; Region: PRK00915 1138308010373 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1138308010374 active site 1138308010375 catalytic residues [active] 1138308010376 metal binding site [ion binding]; metal-binding site 1138308010377 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1138308010378 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1138308010379 tartrate dehydrogenase; Region: TTC; TIGR02089 1138308010380 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1138308010381 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1138308010382 substrate binding site [chemical binding]; other site 1138308010383 ligand binding site [chemical binding]; other site 1138308010384 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1138308010385 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 1138308010386 substrate binding site [chemical binding]; other site 1138308010387 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 1138308010388 sugar efflux transporter; Region: 2A0120; TIGR00899 1138308010389 putative substrate translocation pore; other site 1138308010390 transcriptional regulator SgrR; Provisional; Region: PRK13626 1138308010391 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 1138308010392 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 1138308010393 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1138308010394 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1138308010395 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1138308010396 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 1138308010397 dimer interface [polypeptide binding]; other site 1138308010398 conserved gate region; other site 1138308010399 putative PBP binding loops; other site 1138308010400 ABC-ATPase subunit interface; other site 1138308010401 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 1138308010402 dimer interface [polypeptide binding]; other site 1138308010403 conserved gate region; other site 1138308010404 putative PBP binding loops; other site 1138308010405 ABC-ATPase subunit interface; other site 1138308010406 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1138308010407 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308010408 Walker A/P-loop; other site 1138308010409 ATP binding site [chemical binding]; other site 1138308010410 Q-loop/lid; other site 1138308010411 ABC transporter signature motif; other site 1138308010412 Walker B; other site 1138308010413 D-loop; other site 1138308010414 H-loop/switch region; other site 1138308010415 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1138308010416 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1138308010417 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 1138308010418 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1138308010419 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308010420 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308010421 ribulokinase; Provisional; Region: PRK04123 1138308010422 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 1138308010423 N- and C-terminal domain interface [polypeptide binding]; other site 1138308010424 active site 1138308010425 MgATP binding site [chemical binding]; other site 1138308010426 catalytic site [active] 1138308010427 metal binding site [ion binding]; metal-binding site 1138308010428 carbohydrate binding site [chemical binding]; other site 1138308010429 homodimer interface [polypeptide binding]; other site 1138308010430 L-arabinose isomerase; Provisional; Region: PRK02929 1138308010431 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 1138308010432 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 1138308010433 trimer interface [polypeptide binding]; other site 1138308010434 putative substrate binding site [chemical binding]; other site 1138308010435 putative metal binding site [ion binding]; other site 1138308010436 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1138308010437 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1138308010438 intersubunit interface [polypeptide binding]; other site 1138308010439 active site 1138308010440 Zn2+ binding site [ion binding]; other site 1138308010441 DNA polymerase II; Reviewed; Region: PRK05762 1138308010442 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1138308010443 active site 1138308010444 catalytic site [active] 1138308010445 substrate binding site [chemical binding]; other site 1138308010446 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 1138308010447 active site 1138308010448 metal-binding site 1138308010449 ATP-dependent helicase HepA; Validated; Region: PRK04914 1138308010450 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 1138308010451 ATP binding site [chemical binding]; other site 1138308010452 putative Mg++ binding site [ion binding]; other site 1138308010453 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 1138308010454 nucleotide binding region [chemical binding]; other site 1138308010455 ATP-binding site [chemical binding]; other site 1138308010456 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1138308010457 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1138308010458 active site 1138308010459 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1138308010460 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1138308010461 putative metal binding site [ion binding]; other site 1138308010462 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 1138308010463 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1138308010464 OstA-like protein; Region: OstA; pfam03968 1138308010465 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1138308010466 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1138308010467 SurA N-terminal domain; Region: SurA_N; pfam09312 1138308010468 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1138308010469 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1138308010470 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1138308010471 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1138308010472 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1138308010473 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1138308010474 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1138308010475 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 1138308010476 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1138308010477 active site 1138308010478 metal binding site [ion binding]; metal-binding site 1138308010479 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1138308010480 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 1138308010481 folate binding site [chemical binding]; other site 1138308010482 NADP+ binding site [chemical binding]; other site 1138308010483 LysE type translocator; Region: LysE; cl00565 1138308010484 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1138308010485 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1138308010486 TrkA-N domain; Region: TrkA_N; pfam02254 1138308010487 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 1138308010488 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1138308010489 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1138308010490 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1138308010491 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1138308010492 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1138308010493 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1138308010494 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1138308010495 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 1138308010496 IMP binding site; other site 1138308010497 dimer interface [polypeptide binding]; other site 1138308010498 interdomain contacts; other site 1138308010499 partial ornithine binding site; other site 1138308010500 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 1138308010501 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1138308010502 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1138308010503 catalytic site [active] 1138308010504 subunit interface [polypeptide binding]; other site 1138308010505 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1138308010506 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1138308010507 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1138308010508 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1138308010509 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1138308010510 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 1138308010511 putative active site [active] 1138308010512 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 1138308010513 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 1138308010514 active site 1138308010515 phosphorylation site [posttranslational modification] 1138308010516 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1138308010517 active site 1138308010518 P-loop; other site 1138308010519 phosphorylation site [posttranslational modification] 1138308010520 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1138308010521 alpha-mannosidase; Provisional; Region: PRK09819 1138308010522 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 1138308010523 active site 1138308010524 metal binding site [ion binding]; metal-binding site 1138308010525 catalytic site [active] 1138308010526 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 1138308010527 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1138308010528 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1138308010529 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1138308010530 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1138308010531 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308010532 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308010533 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 1138308010534 putative effector binding pocket; other site 1138308010535 dimerization interface [polypeptide binding]; other site 1138308010536 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1138308010537 active site 1138308010538 tetramer interface [polypeptide binding]; other site 1138308010539 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1138308010540 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1138308010541 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1138308010542 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1138308010543 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1138308010544 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1138308010545 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1138308010546 active site 1138308010547 HIGH motif; other site 1138308010548 nucleotide binding site [chemical binding]; other site 1138308010549 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1138308010550 active site 1138308010551 KMSKS motif; other site 1138308010552 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1138308010553 tRNA binding surface [nucleotide binding]; other site 1138308010554 anticodon binding site; other site 1138308010555 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1138308010556 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1138308010557 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1138308010558 active site 1138308010559 Riboflavin kinase; Region: Flavokinase; smart00904 1138308010560 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1138308010561 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1138308010562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308010563 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 1138308010564 putative dimerization interface [polypeptide binding]; other site 1138308010565 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 1138308010566 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 1138308010567 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 1138308010568 active site 1138308010569 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 1138308010570 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 1138308010571 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1138308010572 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1138308010573 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1138308010574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308010575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308010576 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 1138308010577 dimerization interface [polypeptide binding]; other site 1138308010578 chaperone protein DnaJ; Provisional; Region: PRK10767 1138308010579 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 1138308010580 HSP70 interaction site [polypeptide binding]; other site 1138308010581 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1138308010582 substrate binding site [polypeptide binding]; other site 1138308010583 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1138308010584 Zn binding sites [ion binding]; other site 1138308010585 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1138308010586 dimer interface [polypeptide binding]; other site 1138308010587 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1138308010588 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1138308010589 nucleotide binding site [chemical binding]; other site 1138308010590 hypothetical protein; Provisional; Region: PRK10659 1138308010591 metabolite-proton symporter; Region: 2A0106; TIGR00883 1138308010592 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 1138308010593 putative substrate translocation pore; other site 1138308010594 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 1138308010595 MPT binding site; other site 1138308010596 trimer interface [polypeptide binding]; other site 1138308010597 transaldolase-like protein; Provisional; Region: PTZ00411 1138308010598 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1138308010599 active site 1138308010600 dimer interface [polypeptide binding]; other site 1138308010601 catalytic residue [active] 1138308010602 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1138308010603 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1138308010604 hypothetical protein; Validated; Region: PRK02101 1138308010605 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1138308010606 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 1138308010607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308010608 catalytic residue [active] 1138308010609 homoserine kinase; Provisional; Region: PRK01212 1138308010610 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1138308010611 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1138308010612 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1138308010613 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1138308010614 putative catalytic residues [active] 1138308010615 putative nucleotide binding site [chemical binding]; other site 1138308010616 putative aspartate binding site [chemical binding]; other site 1138308010617 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1138308010618 dimer interface [polypeptide binding]; other site 1138308010619 putative threonine allosteric regulatory site; other site 1138308010620 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1138308010621 putative threonine allosteric regulatory site; other site 1138308010622 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1138308010623 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1138308010624 putative RNA methyltransferase; Provisional; Region: PRK10433 1138308010625 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1138308010626 two-component response regulator; Provisional; Region: PRK11173 1138308010627 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 1138308010628 active site 1138308010629 phosphorylation site [posttranslational modification] 1138308010630 intermolecular recognition site; other site 1138308010631 dimerization interface [polypeptide binding]; other site 1138308010632 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 1138308010633 DNA binding site [nucleotide binding] 1138308010634 inner membrane protein; Provisional; Region: PRK11715 1138308010635 sensory histidine kinase CreC; Provisional; Region: PRK11100 1138308010636 HAMP domain; Region: HAMP; pfam00672 1138308010637 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 1138308010638 dimer interface [polypeptide binding]; other site 1138308010639 phosphorylation site [posttranslational modification] 1138308010640 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 1138308010641 ATP binding site [chemical binding]; other site 1138308010642 Mg2+ binding site [ion binding]; other site 1138308010643 G-X-G motif; other site 1138308010644 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1138308010645 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 1138308010646 active site 1138308010647 phosphorylation site [posttranslational modification] 1138308010648 intermolecular recognition site; other site 1138308010649 dimerization interface [polypeptide binding]; other site 1138308010650 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 1138308010651 DNA binding site [nucleotide binding] 1138308010652 hypothetical protein; Provisional; Region: PRK10756 1138308010653 CreA protein; Region: CreA; pfam05981 1138308010654 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 1138308010655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308010656 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1138308010657 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 1138308010658 catalytic core [active] 1138308010659 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 1138308010660 Trp operon repressor; Provisional; Region: PRK01381 1138308010661 lytic murein transglycosylase; Provisional; Region: PRK11619 1138308010662 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 1138308010663 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1138308010664 catalytic residue [active] 1138308010665 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1138308010666 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308010667 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308010668 ABC transporter; Region: ABC_tran_2; pfam12848 1138308010669 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1138308010670 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1138308010671 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1138308010672 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1138308010673 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 1138308010674 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1138308010675 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1138308010676 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1138308010677 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 1138308010678 active site 1138308010679 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1138308010680 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1138308010681 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 1138308010682 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1138308010683 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1138308010684 Walker A/P-loop; other site 1138308010685 ATP binding site [chemical binding]; other site 1138308010686 Q-loop/lid; other site 1138308010687 ABC transporter signature motif; other site 1138308010688 Walker B; other site 1138308010689 D-loop; other site 1138308010690 H-loop/switch region; other site 1138308010691 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1138308010692 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308010693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308010694 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 1138308010695 putative effector binding pocket; other site 1138308010696 dimerization interface [polypeptide binding]; other site 1138308010697 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1138308010698 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1138308010699 putative NAD(P) binding site [chemical binding]; other site 1138308010700 dimer interface [polypeptide binding]; other site 1138308010701 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 1138308010702 non-specific DNA binding site [nucleotide binding]; other site 1138308010703 salt bridge; other site 1138308010704 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1138308010705 sequence-specific DNA binding site [nucleotide binding]; other site 1138308010706 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 1138308010707 active site 1138308010708 (T/H)XGH motif; other site 1138308010709 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1138308010710 DNA repair protein RadA; Region: sms; TIGR00416 1138308010711 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1138308010712 Walker A motif/ATP binding site; other site 1138308010713 ATP binding site [chemical binding]; other site 1138308010714 Walker B motif; other site 1138308010715 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1138308010716 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 1138308010717 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 1138308010718 motif II; other site 1138308010719 hypothetical protein; Provisional; Region: PRK11246 1138308010720 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 1138308010721 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1138308010722 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1138308010723 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1138308010724 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1138308010725 phosphopentomutase; Provisional; Region: PRK05362 1138308010726 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1138308010727 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 1138308010728 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1138308010729 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1138308010730 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 1138308010731 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1138308010732 intersubunit interface [polypeptide binding]; other site 1138308010733 active site 1138308010734 catalytic residue [active] 1138308010735 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1138308010736 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1138308010737 Nucleoside recognition; Region: Gate; pfam07670 1138308010738 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1138308010739 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1138308010740 active site 1138308010741 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1138308010742 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1138308010743 active site 1138308010744 nucleophile elbow; other site 1138308010745 periplasmic protein; Provisional; Region: PRK10568 1138308010746 BON domain; Region: BON; pfam04972 1138308010747 BON domain; Region: BON; pfam04972 1138308010748 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1138308010749 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1138308010750 G1 box; other site 1138308010751 putative GEF interaction site [polypeptide binding]; other site 1138308010752 GTP/Mg2+ binding site [chemical binding]; other site 1138308010753 Switch I region; other site 1138308010754 G2 box; other site 1138308010755 G3 box; other site 1138308010756 Switch II region; other site 1138308010757 G4 box; other site 1138308010758 G5 box; other site 1138308010759 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 1138308010760 dUMP phosphatase; Provisional; Region: PRK09449 1138308010761 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 1138308010762 motif II; other site 1138308010763 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1138308010764 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308010765 Coenzyme A binding pocket [chemical binding]; other site 1138308010766 DNA polymerase III psi subunit; Region: DNA_III_psi; pfam03603 1138308010767 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1138308010768 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1138308010769 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 1138308010770 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 1138308010771 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308010772 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308010773 metal binding site [ion binding]; metal-binding site 1138308010774 active site 1138308010775 I-site; other site 1138308010776 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 1138308010777 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1138308010778 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1138308010779 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1138308010780 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1138308010781 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 1138308010782 putative deacylase active site [active] 1138308010783 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 1138308010784 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 1138308010785 DNA binding residues [nucleotide binding] 1138308010786 dimerization interface [polypeptide binding]; other site 1138308010787 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1138308010788 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 1138308010789 DNA binding residues [nucleotide binding] 1138308010790 dimerization interface [polypeptide binding]; other site 1138308010791 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1138308010792 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1138308010793 hypothetical protein; Provisional; Region: PRK09917 1138308010794 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1138308010795 MarR family; Region: MarR; pfam01047 1138308010796 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1138308010797 primosomal protein DnaI; Provisional; Region: PRK02854 1138308010798 DNA replication protein DnaC; Validated; Region: PRK07952 1138308010799 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 1138308010800 Walker A motif; other site 1138308010801 ATP binding site [chemical binding]; other site 1138308010802 Walker B motif; other site 1138308010803 phosphoglycerol transferase I; Provisional; Region: PRK03776 1138308010804 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1138308010805 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1138308010806 GAF domain; Region: GAF; pfam01590 1138308010807 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308010808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308010809 metal binding site [ion binding]; metal-binding site 1138308010810 active site 1138308010811 I-site; other site 1138308010812 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 1138308010813 dimerization interface [polypeptide binding]; other site 1138308010814 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308010815 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308010816 metal binding site [ion binding]; metal-binding site 1138308010817 active site 1138308010818 I-site; other site 1138308010819 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1138308010820 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1138308010821 dimer interface [polypeptide binding]; other site 1138308010822 ligand binding site [chemical binding]; other site 1138308010823 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 1138308010824 dimerization interface [polypeptide binding]; other site 1138308010825 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308010826 dimer interface [polypeptide binding]; other site 1138308010827 putative CheW interface [polypeptide binding]; other site 1138308010828 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1138308010829 catalytic triad [active] 1138308010830 putative active site [active] 1138308010831 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1138308010832 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1138308010833 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1138308010834 cytosine deaminase; Provisional; Region: PRK09230 1138308010835 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1138308010836 active site 1138308010837 cytosine permease; Provisional; Region: codB; PRK11017 1138308010838 Na binding site [ion binding]; other site 1138308010839 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 1138308010840 beta-galactosidase; Region: BGL; TIGR03356 1138308010841 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 1138308010842 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308010843 active site turn [active] 1138308010844 phosphorylation site [posttranslational modification] 1138308010845 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1138308010846 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308010847 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308010848 DNA binding site [nucleotide binding] 1138308010849 domain linker motif; other site 1138308010850 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1138308010851 dimerization interface (closed form) [polypeptide binding]; other site 1138308010852 ligand binding site [chemical binding]; other site 1138308010853 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1138308010854 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1138308010855 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308010856 transcriptional regulator SlyA; Provisional; Region: PRK03573 1138308010857 MarR family; Region: MarR_2; cl17246 1138308010858 lac repressor; Reviewed; Region: lacI; PRK09526 1138308010859 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308010860 DNA binding site [nucleotide binding] 1138308010861 domain linker motif; other site 1138308010862 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 1138308010863 ligand binding site [chemical binding]; other site 1138308010864 dimerization interface (open form) [polypeptide binding]; other site 1138308010865 dimerization interface (closed form) [polypeptide binding]; other site 1138308010866 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1138308010867 trimer interface; other site 1138308010868 sugar binding site [chemical binding]; other site 1138308010869 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308010870 active site turn [active] 1138308010871 phosphorylation site [posttranslational modification] 1138308010872 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1138308010873 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1138308010874 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1138308010875 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 1138308010876 Arabinogalactan endo-1,4-beta-galactosidase [Carbohydrate transport and metabolism]; Region: COG3867 1138308010877 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1138308010878 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 1138308010879 dimer interface [polypeptide binding]; other site 1138308010880 conserved gate region; other site 1138308010881 putative PBP binding loops; other site 1138308010882 ABC-ATPase subunit interface; other site 1138308010883 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 1138308010884 dimer interface [polypeptide binding]; other site 1138308010885 conserved gate region; other site 1138308010886 ABC-ATPase subunit interface; other site 1138308010887 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1138308010888 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1138308010889 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1138308010890 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1138308010891 Walker A/P-loop; other site 1138308010892 ATP binding site [chemical binding]; other site 1138308010893 Q-loop/lid; other site 1138308010894 ABC transporter signature motif; other site 1138308010895 Walker B; other site 1138308010896 D-loop; other site 1138308010897 H-loop/switch region; other site 1138308010898 TOBE domain; Region: TOBE; cl01440 1138308010899 TOBE domain; Region: TOBE_2; pfam08402 1138308010900 endoribonuclease SymE; Provisional; Region: PRK13605 1138308010901 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1138308010902 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 1138308010903 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308010904 DNA-binding site [nucleotide binding]; DNA binding site 1138308010905 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 1138308010906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308010907 homodimer interface [polypeptide binding]; other site 1138308010908 catalytic residue [active] 1138308010909 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1138308010910 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 1138308010911 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1138308010912 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1138308010913 dimer interface [polypeptide binding]; other site 1138308010914 active site 1138308010915 metal binding site [ion binding]; metal-binding site 1138308010916 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 1138308010917 non-specific DNA binding site [nucleotide binding]; other site 1138308010918 salt bridge; other site 1138308010919 sequence-specific DNA binding site [nucleotide binding]; other site 1138308010920 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1138308010921 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 1138308010922 active site 1138308010923 DNA binding site [nucleotide binding] 1138308010924 Int/Topo IB signature motif; other site 1138308010925 HTH-like domain; Region: HTH_21; pfam13276 1138308010926 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1138308010927 Integrase core domain; Region: rve; pfam00665 1138308010928 Integrase core domain; Region: rve_3; pfam13683 1138308010929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1138308010930 Transposase; Region: HTH_Tnp_1; cl17663 1138308010931 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 1138308010932 active site 1138308010933 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1138308010934 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 1138308010935 S-adenosylmethionine binding site [chemical binding]; other site 1138308010936 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1138308010937 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1138308010938 putative NAD(P) binding site [chemical binding]; other site 1138308010939 putative substrate binding site [chemical binding]; other site 1138308010940 catalytic Zn binding site [ion binding]; other site 1138308010941 structural Zn binding site [ion binding]; other site 1138308010942 dimer interface [polypeptide binding]; other site 1138308010943 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 1138308010944 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1138308010945 Zn binding sites [ion binding]; other site 1138308010946 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 1138308010947 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1138308010948 DAK2 domain; Region: Dak2; pfam02734 1138308010949 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1138308010950 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1138308010951 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 1138308010952 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1138308010953 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1138308010954 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 1138308010955 interface (dimer of trimers) [polypeptide binding]; other site 1138308010956 Substrate-binding/catalytic site; other site 1138308010957 Zn-binding sites [ion binding]; other site 1138308010958 DNA polymerase III subunit chi; Validated; Region: PRK05728 1138308010959 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1138308010960 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1138308010961 HIGH motif; other site 1138308010962 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1138308010963 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1138308010964 active site 1138308010965 KMSKS motif; other site 1138308010966 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1138308010967 tRNA binding surface [nucleotide binding]; other site 1138308010968 anticodon binding site; other site 1138308010969 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1138308010970 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 1138308010971 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1138308010972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308010973 Coenzyme A binding pocket [chemical binding]; other site 1138308010974 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1138308010975 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1138308010976 active site 1138308010977 dinuclear metal binding site [ion binding]; other site 1138308010978 dimerization interface [polypeptide binding]; other site 1138308010979 RNase E inhibitor protein; Provisional; Region: PRK11191 1138308010980 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 1138308010981 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1138308010982 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1138308010983 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1138308010984 arginine deiminase; Provisional; Region: PRK01388 1138308010985 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1138308010986 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1138308010987 putative substrate binding site [chemical binding]; other site 1138308010988 nucleotide binding site [chemical binding]; other site 1138308010989 nucleotide binding site [chemical binding]; other site 1138308010990 homodimer interface [polypeptide binding]; other site 1138308010991 ornithine carbamoyltransferase; Validated; Region: PRK02102 1138308010992 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1138308010993 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1138308010994 Predicted membrane protein [Function unknown]; Region: COG1288 1138308010995 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1138308010996 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1138308010997 Arginine repressor [Transcription]; Region: ArgR; COG1438 1138308010998 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1138308010999 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 1138308011000 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1138308011001 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1138308011002 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 1138308011003 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 1138308011004 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 1138308011005 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 1138308011006 homotrimer interaction site [polypeptide binding]; other site 1138308011007 putative active site [active] 1138308011008 potential frameshift: common BLAST hit: gi|386640615|ref|YP_006107413.1| Fe-S oxidoreductase 1138308011009 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1138308011010 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1138308011011 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1138308011012 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 1138308011013 FAD binding pocket [chemical binding]; other site 1138308011014 FAD binding motif [chemical binding]; other site 1138308011015 phosphate binding motif [ion binding]; other site 1138308011016 NAD binding pocket [chemical binding]; other site 1138308011017 Predicted transcriptional regulators [Transcription]; Region: COG1695 1138308011018 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1138308011019 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1138308011020 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1138308011021 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 1138308011022 dimerization interface [polypeptide binding]; other site 1138308011023 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308011024 dimer interface [polypeptide binding]; other site 1138308011025 putative CheW interface [polypeptide binding]; other site 1138308011026 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 1138308011027 PAS domain; Region: PAS_9; pfam13426 1138308011028 putative active site [active] 1138308011029 heme pocket [chemical binding]; other site 1138308011030 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1138308011031 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308011032 dimer interface [polypeptide binding]; other site 1138308011033 putative CheW interface [polypeptide binding]; other site 1138308011034 diguanylate cyclase; Provisional; Region: PRK09894 1138308011035 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308011036 metal binding site [ion binding]; metal-binding site 1138308011037 active site 1138308011038 I-site; other site 1138308011039 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 1138308011040 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 1138308011041 inhibitor-cofactor binding pocket; inhibition site 1138308011042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308011043 catalytic residue [active] 1138308011044 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1138308011045 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 1138308011046 active site 1138308011047 FMN binding site [chemical binding]; other site 1138308011048 2,4-decadienoyl-CoA binding site; other site 1138308011049 catalytic residue [active] 1138308011050 4Fe-4S cluster binding site [ion binding]; other site 1138308011051 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1138308011052 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1138308011053 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1138308011054 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 1138308011055 S-adenosylmethionine binding site [chemical binding]; other site 1138308011056 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1138308011057 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 1138308011058 putative active site [active] 1138308011059 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1138308011060 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1138308011061 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1138308011062 serine/threonine transporter SstT; Provisional; Region: PRK13628 1138308011063 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1138308011064 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1138308011065 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1138308011066 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1138308011067 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1138308011068 Glucuronate isomerase; Region: UxaC; pfam02614 1138308011069 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1138308011070 D-galactonate transporter; Region: 2A0114; TIGR00893 1138308011071 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 1138308011072 putative substrate translocation pore; other site 1138308011073 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 1138308011074 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308011075 DNA-binding site [nucleotide binding]; DNA binding site 1138308011076 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1138308011077 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1138308011078 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1138308011079 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 1138308011080 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1138308011081 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1138308011082 Predicted membrane protein [Function unknown]; Region: COG5393 1138308011083 YqjK-like protein; Region: YqjK; pfam13997 1138308011084 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 1138308011085 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 1138308011086 hypothetical protein; Provisional; Region: PRK15301 1138308011087 putative fimbrial outer membrane usher protein; Provisional; Region: PRK15304 1138308011088 PapC N-terminal domain; Region: PapC_N; pfam13954 1138308011089 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1138308011090 PapC C-terminal domain; Region: PapC_C; pfam13953 1138308011091 putative fimbrial chaperone protein; Provisional; Region: PRK09918 1138308011092 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1138308011093 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1138308011094 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 1138308011095 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 1138308011096 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 1138308011097 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 1138308011098 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 1138308011099 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 1138308011100 Predicted membrane protein [Function unknown]; Region: COG2259 1138308011101 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1138308011102 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1138308011103 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1138308011104 putative dimer interface [polypeptide binding]; other site 1138308011105 N-terminal domain interface [polypeptide binding]; other site 1138308011106 putative substrate binding pocket (H-site) [chemical binding]; other site 1138308011107 Predicted membrane protein [Function unknown]; Region: COG3152 1138308011108 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1138308011109 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1138308011110 putative substrate binding site [chemical binding]; other site 1138308011111 putative ATP binding site [chemical binding]; other site 1138308011112 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1138308011113 trimer interface; other site 1138308011114 sugar binding site [chemical binding]; other site 1138308011115 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1138308011116 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308011117 active site turn [active] 1138308011118 phosphorylation site [posttranslational modification] 1138308011119 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1138308011120 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1138308011121 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1138308011122 substrate binding [chemical binding]; other site 1138308011123 active site 1138308011124 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1138308011125 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1138308011126 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308011127 DNA binding site [nucleotide binding] 1138308011128 domain linker motif; other site 1138308011129 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1138308011130 dimerization interface [polypeptide binding]; other site 1138308011131 ligand binding site [chemical binding]; other site 1138308011132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308011133 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1138308011134 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 1138308011135 dimerization interface [polypeptide binding]; other site 1138308011136 Pirin-related protein [General function prediction only]; Region: COG1741 1138308011137 Pirin; Region: Pirin; pfam02678 1138308011138 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1138308011139 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1138308011140 putative SAM binding site [chemical binding]; other site 1138308011141 putative homodimer interface [polypeptide binding]; other site 1138308011142 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 1138308011143 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1138308011144 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1138308011145 putative ligand binding site [chemical binding]; other site 1138308011146 TIGR00252 family protein; Region: TIGR00252 1138308011147 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 1138308011148 dimer interface [polypeptide binding]; other site 1138308011149 active site 1138308011150 outer membrane lipoprotein; Provisional; Region: PRK11023 1138308011151 BON domain; Region: BON; pfam04972 1138308011152 BON domain; Region: BON; pfam04972 1138308011153 Predicted permease; Region: DUF318; pfam03773 1138308011154 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1138308011155 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1138308011156 NAD binding site [chemical binding]; other site 1138308011157 active site 1138308011158 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1138308011159 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1138308011160 proposed catalytic triad [active] 1138308011161 conserved cys residue [active] 1138308011162 hypothetical protein; Provisional; Region: PRK03467 1138308011163 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1138308011164 GIY-YIG motif/motif A; other site 1138308011165 putative active site [active] 1138308011166 putative metal binding site [ion binding]; other site 1138308011167 putative acetyltransferase; Provisional; Region: PRK03624 1138308011168 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308011169 Coenzyme A binding pocket [chemical binding]; other site 1138308011170 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1138308011171 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1138308011172 Peptidase family U32; Region: Peptidase_U32; pfam01136 1138308011173 putative protease; Provisional; Region: PRK15447 1138308011174 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1138308011175 hypothetical protein; Provisional; Region: PRK10508 1138308011176 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1138308011177 tryptophan permease; Provisional; Region: PRK10483 1138308011178 aromatic amino acid transport protein; Region: araaP; TIGR00837 1138308011179 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1138308011180 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 1138308011181 ATP binding site [chemical binding]; other site 1138308011182 Mg++ binding site [ion binding]; other site 1138308011183 motif III; other site 1138308011184 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 1138308011185 nucleotide binding region [chemical binding]; other site 1138308011186 ATP-binding site [chemical binding]; other site 1138308011187 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1138308011188 putative RNA binding site [nucleotide binding]; other site 1138308011189 lipoprotein NlpI; Provisional; Region: PRK11189 1138308011190 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 1138308011191 binding surface 1138308011192 TPR motif; other site 1138308011193 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1138308011194 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1138308011195 trimer interface [polypeptide binding]; other site 1138308011196 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1138308011197 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1138308011198 RNase E interface [polypeptide binding]; other site 1138308011199 trimer interface [polypeptide binding]; other site 1138308011200 active site 1138308011201 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 1138308011202 putative nucleic acid binding region [nucleotide binding]; other site 1138308011203 G-X-X-G motif; other site 1138308011204 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 1138308011205 RNA binding site [nucleotide binding]; other site 1138308011206 domain interface; other site 1138308011207 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 1138308011208 16S/18S rRNA binding site [nucleotide binding]; other site 1138308011209 S13e-L30e interaction site [polypeptide binding]; other site 1138308011210 25S rRNA binding site [nucleotide binding]; other site 1138308011211 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1138308011212 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1138308011213 RNA binding site [nucleotide binding]; other site 1138308011214 active site 1138308011215 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1138308011216 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1138308011217 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1138308011218 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1138308011219 translation initiation factor IF-2; Region: IF-2; TIGR00487 1138308011220 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1138308011221 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1138308011222 G1 box; other site 1138308011223 putative GEF interaction site [polypeptide binding]; other site 1138308011224 GTP/Mg2+ binding site [chemical binding]; other site 1138308011225 Switch I region; other site 1138308011226 G2 box; other site 1138308011227 G3 box; other site 1138308011228 Switch II region; other site 1138308011229 G4 box; other site 1138308011230 G5 box; other site 1138308011231 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 1138308011232 Translation-initiation factor 2; Region: IF-2; pfam11987 1138308011233 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 1138308011234 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1138308011235 NusA N-terminal domain; Region: NusA_N; pfam08529 1138308011236 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 1138308011237 RNA binding site [nucleotide binding]; other site 1138308011238 homodimer interface [polypeptide binding]; other site 1138308011239 NusA-like KH domain; Region: KH_5; pfam13184 1138308011240 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 1138308011241 G-X-X-G motif; other site 1138308011242 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1138308011243 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1138308011244 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1138308011245 hypothetical protein; Provisional; Region: PRK14641 1138308011246 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1138308011247 putative oligomer interface [polypeptide binding]; other site 1138308011248 putative RNA binding site [nucleotide binding]; other site 1138308011249 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1138308011250 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1138308011251 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 1138308011252 active site 1138308011253 substrate binding site [chemical binding]; other site 1138308011254 metal binding site [ion binding]; metal-binding site 1138308011255 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 1138308011256 dihydropteroate synthase; Region: DHPS; TIGR01496 1138308011257 substrate binding pocket [chemical binding]; other site 1138308011258 dimer interface [polypeptide binding]; other site 1138308011259 inhibitor binding site; inhibition site 1138308011260 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1138308011261 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 1138308011262 Walker A motif; other site 1138308011263 ATP binding site [chemical binding]; other site 1138308011264 Walker B motif; other site 1138308011265 arginine finger; other site 1138308011266 Peptidase family M41; Region: Peptidase_M41; pfam01434 1138308011267 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1138308011268 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 1138308011269 S-adenosylmethionine binding site [chemical binding]; other site 1138308011270 RNA-binding protein YhbY; Provisional; Region: PRK10343 1138308011271 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1138308011272 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1138308011273 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1138308011274 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1138308011275 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1138308011276 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1138308011277 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 1138308011278 active site 1138308011279 phosphorylation site [posttranslational modification] 1138308011280 intermolecular recognition site; other site 1138308011281 dimerization interface [polypeptide binding]; other site 1138308011282 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 1138308011283 DNA binding site [nucleotide binding] 1138308011284 sensor protein BasS/PmrB; Provisional; Region: PRK10755 1138308011285 HAMP domain; Region: HAMP; pfam00672 1138308011286 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 1138308011287 dimer interface [polypeptide binding]; other site 1138308011288 phosphorylation site [posttranslational modification] 1138308011289 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 1138308011290 ATP binding site [chemical binding]; other site 1138308011291 Mg2+ binding site [ion binding]; other site 1138308011292 G-X-G motif; other site 1138308011293 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1138308011294 GTP1/OBG; Region: GTP1_OBG; pfam01018 1138308011295 Obg GTPase; Region: Obg; cd01898 1138308011296 G1 box; other site 1138308011297 GTP/Mg2+ binding site [chemical binding]; other site 1138308011298 Switch I region; other site 1138308011299 G2 box; other site 1138308011300 G3 box; other site 1138308011301 Switch II region; other site 1138308011302 G4 box; other site 1138308011303 G5 box; other site 1138308011304 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1138308011305 EamA-like transporter family; Region: EamA; pfam00892 1138308011306 EamA-like transporter family; Region: EamA; pfam00892 1138308011307 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1138308011308 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1138308011309 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1138308011310 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1138308011311 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1138308011312 substrate binding pocket [chemical binding]; other site 1138308011313 chain length determination region; other site 1138308011314 substrate-Mg2+ binding site; other site 1138308011315 catalytic residues [active] 1138308011316 aspartate-rich region 1; other site 1138308011317 active site lid residues [active] 1138308011318 aspartate-rich region 2; other site 1138308011319 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1138308011320 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1138308011321 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 1138308011322 hinge; other site 1138308011323 active site 1138308011324 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1138308011325 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 1138308011326 anti sigma factor interaction site; other site 1138308011327 regulatory phosphorylation site [posttranslational modification]; other site 1138308011328 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 1138308011329 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1138308011330 mce related protein; Region: MCE; pfam02470 1138308011331 conserved hypothetical integral membrane protein; Region: TIGR00056 1138308011332 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1138308011333 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1138308011334 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1138308011335 Walker A/P-loop; other site 1138308011336 ATP binding site [chemical binding]; other site 1138308011337 Q-loop/lid; other site 1138308011338 ABC transporter signature motif; other site 1138308011339 Walker B; other site 1138308011340 D-loop; other site 1138308011341 H-loop/switch region; other site 1138308011342 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1138308011343 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1138308011344 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1138308011345 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1138308011346 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 1138308011347 putative active site [active] 1138308011348 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 1138308011349 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 1138308011350 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1138308011351 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 1138308011352 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1138308011353 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 1138308011354 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 1138308011355 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 1138308011356 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1138308011357 Walker A/P-loop; other site 1138308011358 ATP binding site [chemical binding]; other site 1138308011359 Q-loop/lid; other site 1138308011360 ABC transporter signature motif; other site 1138308011361 Walker B; other site 1138308011362 D-loop; other site 1138308011363 H-loop/switch region; other site 1138308011364 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1138308011365 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1138308011366 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1138308011367 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 1138308011368 30S subunit binding site; other site 1138308011369 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 1138308011370 active site 1138308011371 phosphorylation site [posttranslational modification] 1138308011372 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 1138308011373 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1138308011374 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 1138308011375 dimerization domain swap beta strand [polypeptide binding]; other site 1138308011376 regulatory protein interface [polypeptide binding]; other site 1138308011377 active site 1138308011378 regulatory phosphorylation site [posttranslational modification]; other site 1138308011379 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1138308011380 Transglycosylase; Region: Transgly; cl17702 1138308011381 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1138308011382 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1138308011383 conserved cys residue [active] 1138308011384 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1138308011385 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 1138308011386 putative active site [active] 1138308011387 heme pocket [chemical binding]; other site 1138308011388 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 1138308011389 dimer interface [polypeptide binding]; other site 1138308011390 phosphorylation site [posttranslational modification] 1138308011391 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 1138308011392 ATP binding site [chemical binding]; other site 1138308011393 Mg2+ binding site [ion binding]; other site 1138308011394 G-X-G motif; other site 1138308011395 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 1138308011396 active site 1138308011397 phosphorylation site [posttranslational modification] 1138308011398 intermolecular recognition site; other site 1138308011399 dimerization interface [polypeptide binding]; other site 1138308011400 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 1138308011401 putative binding surface; other site 1138308011402 active site 1138308011403 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1138308011404 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 1138308011405 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1138308011406 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 1138308011407 active site 1138308011408 dimer interface [polypeptide binding]; other site 1138308011409 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1138308011410 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 1138308011411 active site 1138308011412 FMN binding site [chemical binding]; other site 1138308011413 substrate binding site [chemical binding]; other site 1138308011414 3Fe-4S cluster binding site [ion binding]; other site 1138308011415 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 1138308011416 domain interface; other site 1138308011417 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1138308011418 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1138308011419 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308011420 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1138308011421 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 1138308011422 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1138308011423 Autotransporter beta-domain; Region: Autotransporter; smart00869 1138308011424 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1138308011425 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1138308011426 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1138308011427 nucleotide binding site [chemical binding]; other site 1138308011428 putative sialic acid transporter; Provisional; Region: PRK03893 1138308011429 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 1138308011430 putative substrate translocation pore; other site 1138308011431 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1138308011432 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1138308011433 inhibitor site; inhibition site 1138308011434 active site 1138308011435 dimer interface [polypeptide binding]; other site 1138308011436 catalytic residue [active] 1138308011437 transcriptional regulator NanR; Provisional; Region: PRK03837 1138308011438 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308011439 DNA-binding site [nucleotide binding]; DNA binding site 1138308011440 FCD domain; Region: FCD; pfam07729 1138308011441 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1138308011442 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1138308011443 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 1138308011444 C-terminal domain interface [polypeptide binding]; other site 1138308011445 putative GSH binding site (G-site) [chemical binding]; other site 1138308011446 dimer interface [polypeptide binding]; other site 1138308011447 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1138308011448 dimer interface [polypeptide binding]; other site 1138308011449 N-terminal domain interface [polypeptide binding]; other site 1138308011450 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1138308011451 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 1138308011452 23S rRNA interface [nucleotide binding]; other site 1138308011453 L3 interface [polypeptide binding]; other site 1138308011454 Predicted ATPase [General function prediction only]; Region: COG1485 1138308011455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1138308011456 hypothetical protein; Provisional; Region: PRK11677 1138308011457 serine endoprotease; Provisional; Region: PRK10139 1138308011458 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1138308011459 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 1138308011460 protein binding site [polypeptide binding]; other site 1138308011461 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 1138308011462 serine endoprotease; Provisional; Region: PRK10898 1138308011463 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1138308011464 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 1138308011465 protein binding site [polypeptide binding]; other site 1138308011466 malate dehydrogenase; Provisional; Region: PRK05086 1138308011467 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1138308011468 NAD binding site [chemical binding]; other site 1138308011469 dimerization interface [polypeptide binding]; other site 1138308011470 Substrate binding site [chemical binding]; other site 1138308011471 arginine repressor; Provisional; Region: PRK05066 1138308011472 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1138308011473 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1138308011474 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1138308011475 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1138308011476 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 1138308011477 RNAase interaction site [polypeptide binding]; other site 1138308011478 succinic semialdehyde dehydrogenase; Region: PLN02278 1138308011479 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1138308011480 tetramerization interface [polypeptide binding]; other site 1138308011481 NAD(P) binding site [chemical binding]; other site 1138308011482 catalytic residues [active] 1138308011483 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 1138308011484 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1138308011485 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1138308011486 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308011487 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308011488 efflux system membrane protein; Provisional; Region: PRK11594 1138308011489 transcriptional regulator; Provisional; Region: PRK10632 1138308011490 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308011491 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 1138308011492 putative effector binding pocket; other site 1138308011493 dimerization interface [polypeptide binding]; other site 1138308011494 protease TldD; Provisional; Region: tldD; PRK10735 1138308011495 hypothetical protein; Provisional; Region: PRK10899 1138308011496 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1138308011497 ribonuclease G; Provisional; Region: PRK11712 1138308011498 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 1138308011499 homodimer interface [polypeptide binding]; other site 1138308011500 oligonucleotide binding site [chemical binding]; other site 1138308011501 Maf-like protein; Region: Maf; pfam02545 1138308011502 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 1138308011503 active site 1138308011504 dimer interface [polypeptide binding]; other site 1138308011505 rod shape-determining protein MreD; Provisional; Region: PRK11060 1138308011506 rod shape-determining protein MreC; Region: mreC; TIGR00219 1138308011507 rod shape-determining protein MreC; Region: MreC; pfam04085 1138308011508 rod shape-determining protein MreB; Provisional; Region: PRK13927 1138308011509 MreB and similar proteins; Region: MreB_like; cd10225 1138308011510 nucleotide binding site [chemical binding]; other site 1138308011511 Mg binding site [ion binding]; other site 1138308011512 putative protofilament interaction site [polypeptide binding]; other site 1138308011513 RodZ interaction site [polypeptide binding]; other site 1138308011514 regulatory protein CsrD; Provisional; Region: PRK11059 1138308011515 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308011516 metal binding site [ion binding]; metal-binding site 1138308011517 active site 1138308011518 I-site; other site 1138308011519 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 1138308011520 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1138308011521 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1138308011522 NADP binding site [chemical binding]; other site 1138308011523 dimer interface [polypeptide binding]; other site 1138308011524 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1138308011525 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 1138308011526 Moco binding site; other site 1138308011527 metal coordination site [ion binding]; other site 1138308011528 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1138308011529 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 1138308011530 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1138308011531 active site 1138308011532 trimer interface [polypeptide binding]; other site 1138308011533 dimer interface [polypeptide binding]; other site 1138308011534 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1138308011535 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 1138308011536 carboxyltransferase (CT) interaction site; other site 1138308011537 biotinylation site [posttranslational modification]; other site 1138308011538 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1138308011539 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1138308011540 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1138308011541 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1138308011542 hypothetical protein; Provisional; Region: PRK10633 1138308011543 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1138308011544 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1138308011545 Na binding site [ion binding]; other site 1138308011546 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1138308011547 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 1138308011548 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1138308011549 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 1138308011550 FMN binding site [chemical binding]; other site 1138308011551 active site 1138308011552 catalytic residues [active] 1138308011553 substrate binding site [chemical binding]; other site 1138308011554 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1138308011555 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1138308011556 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1138308011557 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1138308011558 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1138308011559 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1138308011560 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1138308011561 metal binding site [ion binding]; metal-binding site 1138308011562 active site 1138308011563 I-site; other site 1138308011564 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 1138308011565 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 1138308011566 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308011567 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1138308011568 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1138308011569 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1138308011570 HlyD family secretion protein; Region: HlyD_3; pfam13437 1138308011571 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 1138308011572 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1138308011573 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 1138308011574 substrate binding pocket [chemical binding]; other site 1138308011575 membrane-bound complex binding site; other site 1138308011576 hinge residues; other site 1138308011577 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1138308011578 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 1138308011579 conserved gate region; other site 1138308011580 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 1138308011581 dimer interface [polypeptide binding]; other site 1138308011582 ABC-ATPase subunit interface; other site 1138308011583 putative PBP binding loops; other site 1138308011584 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 1138308011585 dimer interface [polypeptide binding]; other site 1138308011586 conserved gate region; other site 1138308011587 putative PBP binding loops; other site 1138308011588 ABC-ATPase subunit interface; other site 1138308011589 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1138308011590 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1138308011591 Walker A/P-loop; other site 1138308011592 ATP binding site [chemical binding]; other site 1138308011593 Q-loop/lid; other site 1138308011594 ABC transporter signature motif; other site 1138308011595 Walker B; other site 1138308011596 D-loop; other site 1138308011597 H-loop/switch region; other site 1138308011598 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1138308011599 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 1138308011600 purine monophosphate binding site [chemical binding]; other site 1138308011601 dimer interface [polypeptide binding]; other site 1138308011602 putative catalytic residues [active] 1138308011603 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1138308011604 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1138308011605 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1138308011606 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1138308011607 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1138308011608 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1138308011609 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 1138308011610 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 1138308011611 IHF dimer interface [polypeptide binding]; other site 1138308011612 IHF - DNA interface [nucleotide binding]; other site 1138308011613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 1138308011614 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1138308011615 Active_site [active] 1138308011616 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1138308011617 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 1138308011618 substrate binding site [chemical binding]; other site 1138308011619 active site 1138308011620 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1138308011621 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1138308011622 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1138308011623 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 1138308011624 putative NADH binding site [chemical binding]; other site 1138308011625 putative active site [active] 1138308011626 nudix motif; other site 1138308011627 putative metal binding site [ion binding]; other site 1138308011628 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1138308011629 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1138308011630 ThiC-associated domain; Region: ThiC-associated; pfam13667 1138308011631 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1138308011632 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 1138308011633 thiamine phosphate binding site [chemical binding]; other site 1138308011634 active site 1138308011635 pyrophosphate binding site [ion binding]; other site 1138308011636 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1138308011637 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 1138308011638 ATP binding site [chemical binding]; other site 1138308011639 substrate interface [chemical binding]; other site 1138308011640 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1138308011641 thiS-thiF/thiG interaction site; other site 1138308011642 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 1138308011643 ThiS interaction site; other site 1138308011644 putative active site [active] 1138308011645 tetramer interface [polypeptide binding]; other site 1138308011646 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 1138308011647 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 1138308011648 FeS/SAM binding site; other site 1138308011649 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1138308011650 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1138308011651 active site 1138308011652 P-loop; other site 1138308011653 phosphorylation site [posttranslational modification] 1138308011654 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1138308011655 methionine cluster; other site 1138308011656 active site 1138308011657 phosphorylation site [posttranslational modification] 1138308011658 metal binding site [ion binding]; metal-binding site 1138308011659 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 1138308011660 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1138308011661 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1138308011662 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1138308011663 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1138308011664 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1138308011665 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1138308011666 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1138308011667 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1138308011668 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1138308011669 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1138308011670 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1138308011671 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1138308011672 DNA binding site [nucleotide binding] 1138308011673 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1138308011674 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1138308011675 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 1138308011676 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1138308011677 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 1138308011678 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1138308011679 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 1138308011680 RPB3 interaction site [polypeptide binding]; other site 1138308011681 RPB1 interaction site [polypeptide binding]; other site 1138308011682 RPB11 interaction site [polypeptide binding]; other site 1138308011683 RPB10 interaction site [polypeptide binding]; other site 1138308011684 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 1138308011685 core dimer interface [polypeptide binding]; other site 1138308011686 peripheral dimer interface [polypeptide binding]; other site 1138308011687 L10 interface [polypeptide binding]; other site 1138308011688 L11 interface [polypeptide binding]; other site 1138308011689 putative EF-Tu interaction site [polypeptide binding]; other site 1138308011690 putative EF-G interaction site [polypeptide binding]; other site 1138308011691 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 1138308011692 23S rRNA interface [nucleotide binding]; other site 1138308011693 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1138308011694 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 1138308011695 mRNA/rRNA interface [nucleotide binding]; other site 1138308011696 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1138308011697 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 1138308011698 23S rRNA interface [nucleotide binding]; other site 1138308011699 L7/L12 interface [polypeptide binding]; other site 1138308011700 putative thiostrepton binding site; other site 1138308011701 L25 interface [polypeptide binding]; other site 1138308011702 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1138308011703 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1138308011704 putative homodimer interface [polypeptide binding]; other site 1138308011705 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1138308011706 heterodimer interface [polypeptide binding]; other site 1138308011707 homodimer interface [polypeptide binding]; other site 1138308011708 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1138308011709 elongation factor Tu; Reviewed; Region: PRK00049 1138308011710 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1138308011711 G1 box; other site 1138308011712 GEF interaction site [polypeptide binding]; other site 1138308011713 GTP/Mg2+ binding site [chemical binding]; other site 1138308011714 Switch I region; other site 1138308011715 G2 box; other site 1138308011716 G3 box; other site 1138308011717 Switch II region; other site 1138308011718 G4 box; other site 1138308011719 G5 box; other site 1138308011720 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 1138308011721 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 1138308011722 Antibiotic Binding Site [chemical binding]; other site 1138308011723 pantothenate kinase; Provisional; Region: PRK05439 1138308011724 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1138308011725 ATP-binding site [chemical binding]; other site 1138308011726 CoA-binding site [chemical binding]; other site 1138308011727 Mg2+-binding site [ion binding]; other site 1138308011728 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1138308011729 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1138308011730 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1138308011731 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1138308011732 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1138308011733 FAD binding domain; Region: FAD_binding_4; pfam01565 1138308011734 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1138308011735 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 1138308011736 potassium transporter; Provisional; Region: PRK10750 1138308011737 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1138308011738 hypothetical protein; Provisional; Region: PRK11568 1138308011739 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1138308011740 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1138308011741 proline dipeptidase; Provisional; Region: PRK13607 1138308011742 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 1138308011743 active site 1138308011744 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1138308011745 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 1138308011746 substrate binding site [chemical binding]; other site 1138308011747 oxyanion hole (OAH) forming residues; other site 1138308011748 trimer interface [polypeptide binding]; other site 1138308011749 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1138308011750 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1138308011751 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1138308011752 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1138308011753 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 1138308011754 dimer interface [polypeptide binding]; other site 1138308011755 active site 1138308011756 FMN reductase; Validated; Region: fre; PRK08051 1138308011757 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 1138308011758 FAD binding pocket [chemical binding]; other site 1138308011759 FAD binding motif [chemical binding]; other site 1138308011760 phosphate binding motif [ion binding]; other site 1138308011761 beta-alpha-beta structure motif; other site 1138308011762 NAD binding pocket [chemical binding]; other site 1138308011763 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 1138308011764 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 1138308011765 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 1138308011766 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1138308011767 active site 1138308011768 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 1138308011769 sec-independent translocase; Provisional; Region: PRK01770 1138308011770 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1138308011771 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1138308011772 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1138308011773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1138308011774 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1138308011775 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1138308011776 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 1138308011777 S-adenosylmethionine binding site [chemical binding]; other site 1138308011778 DNA recombination protein RmuC; Provisional; Region: PRK10361 1138308011779 RmuC family; Region: RmuC; pfam02646 1138308011780 uridine phosphorylase; Provisional; Region: PRK11178 1138308011781 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 1138308011782 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1138308011783 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1138308011784 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 1138308011785 THF binding site; other site 1138308011786 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 1138308011787 substrate binding site [chemical binding]; other site 1138308011788 THF binding site; other site 1138308011789 zinc-binding site [ion binding]; other site 1138308011790 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1138308011791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308011792 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 1138308011793 putative dimerization interface [polypeptide binding]; other site 1138308011794 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1138308011795 EamA-like transporter family; Region: EamA; pfam00892 1138308011796 putative hydrolase; Provisional; Region: PRK10976 1138308011797 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 1138308011798 active site 1138308011799 motif I; other site 1138308011800 motif II; other site 1138308011801 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; cl17915 1138308011802 lysophospholipase L2; Provisional; Region: PRK10749 1138308011803 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1138308011804 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 1138308011805 threonine efflux system; Provisional; Region: PRK10229 1138308011806 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1138308011807 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 1138308011808 ATP binding site [chemical binding]; other site 1138308011809 putative Mg++ binding site [ion binding]; other site 1138308011810 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 1138308011811 nucleotide binding region [chemical binding]; other site 1138308011812 ATP-binding site [chemical binding]; other site 1138308011813 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1138308011814 HRDC domain; Region: HRDC; pfam00570 1138308011815 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; cd00541 1138308011816 dimerization interface [polypeptide binding]; other site 1138308011817 substrate binding site [chemical binding]; other site 1138308011818 active site 1138308011819 calcium binding site [ion binding]; other site 1138308011820 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 1138308011821 CoenzymeA binding site [chemical binding]; other site 1138308011822 subunit interaction site [polypeptide binding]; other site 1138308011823 PHB binding site; other site 1138308011824 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 1138308011825 EamA-like transporter family; Region: EamA; cl17759 1138308011826 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1138308011827 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1138308011828 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1138308011829 Cl binding site [ion binding]; other site 1138308011830 oligomer interface [polypeptide binding]; other site 1138308011831 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1138308011832 Part of AAA domain; Region: AAA_19; pfam13245 1138308011833 Family description; Region: UvrD_C_2; pfam13538 1138308011834 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1138308011835 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 1138308011836 motif II; other site 1138308011837 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 1138308011838 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1138308011839 active site 1138308011840 Int/Topo IB signature motif; other site 1138308011841 hypothetical protein; Provisional; Region: PRK10963 1138308011842 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1138308011843 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1138308011844 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1138308011845 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 1138308011846 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 1138308011847 putative iron binding site [ion binding]; other site 1138308011848 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 1138308011849 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1138308011850 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1138308011851 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1138308011852 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 1138308011853 domain interfaces; other site 1138308011854 active site 1138308011855 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1138308011856 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 1138308011857 active site 1138308011858 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1138308011859 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 1138308011860 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 1138308011861 HemY protein N-terminus; Region: HemY_N; pfam07219 1138308011862 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 1138308011863 TPR motif; other site 1138308011864 binding surface 1138308011865 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308011866 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308011867 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308011868 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308011869 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308011870 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308011871 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308011872 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308011873 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308011874 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308011875 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308011876 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308011877 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308011878 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1138308011879 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1138308011880 putative transport protein YifK; Provisional; Region: PRK10746 1138308011881 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1138308011882 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1138308011883 putative common antigen polymerase; Provisional; Region: PRK02975 1138308011884 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 1138308011885 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 1138308011886 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1138308011887 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 1138308011888 inhibitor-cofactor binding pocket; inhibition site 1138308011889 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308011890 catalytic residue [active] 1138308011891 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 1138308011892 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1138308011893 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1138308011894 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1138308011895 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1138308011896 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 1138308011897 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 1138308011898 homodimer interface [polypeptide binding]; other site 1138308011899 active site 1138308011900 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 1138308011901 Chain length determinant protein; Region: Wzz; pfam02706 1138308011902 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1138308011903 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1138308011904 Mg++ binding site [ion binding]; other site 1138308011905 putative catalytic motif [active] 1138308011906 substrate binding site [chemical binding]; other site 1138308011907 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1138308011908 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1138308011909 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 1138308011910 RNA binding site [nucleotide binding]; other site 1138308011911 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 1138308011912 multimer interface [polypeptide binding]; other site 1138308011913 Walker A motif; other site 1138308011914 ATP binding site [chemical binding]; other site 1138308011915 Walker B motif; other site 1138308011916 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 1138308011917 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1138308011918 catalytic residues [active] 1138308011919 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1138308011920 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 1138308011921 ATP binding site [chemical binding]; other site 1138308011922 Mg++ binding site [ion binding]; other site 1138308011923 motif III; other site 1138308011924 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 1138308011925 nucleotide binding region [chemical binding]; other site 1138308011926 ATP-binding site [chemical binding]; other site 1138308011927 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 1138308011928 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1138308011929 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 1138308011930 Part of AAA domain; Region: AAA_19; pfam13245 1138308011931 Family description; Region: UvrD_C_2; pfam13538 1138308011932 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 1138308011933 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1138308011934 ketol-acid reductoisomerase; Validated; Region: PRK05225 1138308011935 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1138308011936 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1138308011937 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1138308011938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308011939 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1138308011940 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 1138308011941 putative dimerization interface [polypeptide binding]; other site 1138308011942 threonine dehydratase; Reviewed; Region: PRK09224 1138308011943 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 1138308011944 tetramer interface [polypeptide binding]; other site 1138308011945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308011946 catalytic residue [active] 1138308011947 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1138308011948 putative Ile/Val binding site [chemical binding]; other site 1138308011949 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1138308011950 putative Ile/Val binding site [chemical binding]; other site 1138308011951 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1138308011952 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1138308011953 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 1138308011954 homodimer interface [polypeptide binding]; other site 1138308011955 substrate-cofactor binding pocket; other site 1138308011956 catalytic residue [active] 1138308011957 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1138308011958 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1138308011959 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1138308011960 PYR/PP interface [polypeptide binding]; other site 1138308011961 dimer interface [polypeptide binding]; other site 1138308011962 TPP binding site [chemical binding]; other site 1138308011963 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1138308011964 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 1138308011965 TPP-binding site [chemical binding]; other site 1138308011966 dimer interface [polypeptide binding]; other site 1138308011967 putative ATP-dependent protease; Provisional; Region: PRK09862 1138308011968 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1138308011969 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 1138308011970 Walker A motif; other site 1138308011971 ATP binding site [chemical binding]; other site 1138308011972 Walker B motif; other site 1138308011973 arginine finger; other site 1138308011974 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1138308011975 hypothetical protein; Provisional; Region: PRK11027 1138308011976 transcriptional regulator HdfR; Provisional; Region: PRK03601 1138308011977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308011978 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1138308011979 dimerization interface [polypeptide binding]; other site 1138308011980 glutamate racemase; Provisional; Region: PRK00865 1138308011981 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 1138308011982 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 1138308011983 N-terminal plug; other site 1138308011984 ligand-binding site [chemical binding]; other site 1138308011985 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1138308011986 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 1138308011987 S-adenosylmethionine binding site [chemical binding]; other site 1138308011988 hypothetical protein; Provisional; Region: PRK11056 1138308011989 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1138308011990 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1138308011991 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1138308011992 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1138308011993 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1138308011994 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1138308011995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308011996 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 1138308011997 dimerization interface [polypeptide binding]; other site 1138308011998 argininosuccinate lyase; Provisional; Region: PRK04833 1138308011999 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1138308012000 active sites [active] 1138308012001 tetramer interface [polypeptide binding]; other site 1138308012002 argininosuccinate synthase; Provisional; Region: PRK13820 1138308012003 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1138308012004 ANP binding site [chemical binding]; other site 1138308012005 Substrate Binding Site II [chemical binding]; other site 1138308012006 Substrate Binding Site I [chemical binding]; other site 1138308012007 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 1138308012008 nucleotide binding site [chemical binding]; other site 1138308012009 N-acetyl-L-glutamate binding site [chemical binding]; other site 1138308012010 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1138308012011 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1138308012012 acetylornithine deacetylase; Provisional; Region: PRK05111 1138308012013 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1138308012014 metal binding site [ion binding]; metal-binding site 1138308012015 putative dimer interface [polypeptide binding]; other site 1138308012016 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1138308012017 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1138308012018 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308012019 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1138308012020 PapC N-terminal domain; Region: PapC_N; pfam13954 1138308012021 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1138308012022 PapC C-terminal domain; Region: PapC_C; pfam13953 1138308012023 putative chaperone protein EcpD; Provisional; Region: PRK09926 1138308012024 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1138308012025 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1138308012026 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1138308012027 malate:quinone oxidoreductase; Validated; Region: PRK05257 1138308012028 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1138308012029 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 1138308012030 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1138308012031 putative active site [active] 1138308012032 heme pocket [chemical binding]; other site 1138308012033 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 1138308012034 putative active site [active] 1138308012035 heme pocket [chemical binding]; other site 1138308012036 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1138308012037 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1138308012038 dimer interface [polypeptide binding]; other site 1138308012039 putative CheW interface [polypeptide binding]; other site 1138308012040 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 1138308012041 FAD binding site [chemical binding]; other site 1138308012042 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 1138308012043 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1138308012044 putative catalytic residues [active] 1138308012045 putative nucleotide binding site [chemical binding]; other site 1138308012046 putative aspartate binding site [chemical binding]; other site 1138308012047 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1138308012048 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1138308012049 cystathionine gamma-synthase; Provisional; Region: PRK08045 1138308012050 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 1138308012051 homodimer interface [polypeptide binding]; other site 1138308012052 substrate-cofactor binding pocket; other site 1138308012053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1138308012054 catalytic residue [active] 1138308012055 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 1138308012056 dimerization interface [polypeptide binding]; other site 1138308012057 DNA binding site [nucleotide binding] 1138308012058 corepressor binding sites; other site 1138308012059 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1138308012060 primosome assembly protein PriA; Validated; Region: PRK05580 1138308012061 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 1138308012062 ATP binding site [chemical binding]; other site 1138308012063 putative Mg++ binding site [ion binding]; other site 1138308012064 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1138308012065 ATP-binding site [chemical binding]; other site 1138308012066 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308012067 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 1138308012068 DNA binding site [nucleotide binding] 1138308012069 domain linker motif; other site 1138308012070 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1138308012071 dimerization interface [polypeptide binding]; other site 1138308012072 ligand binding site [chemical binding]; other site 1138308012073 Sporulation related domain; Region: SPOR; cl10051 1138308012074 cell division protein FtsN; Provisional; Region: PRK12757 1138308012075 Sporulation related domain; Region: SPOR; cl10051 1138308012076 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 1138308012077 active site 1138308012078 HslU subunit interaction site [polypeptide binding]; other site 1138308012079 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1138308012080 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 1138308012081 Walker A motif; other site 1138308012082 ATP binding site [chemical binding]; other site 1138308012083 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 1138308012084 Walker B motif; other site 1138308012085 arginine finger; other site 1138308012086 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1138308012087 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1138308012088 UbiA prenyltransferase family; Region: UbiA; pfam01040 1138308012089 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1138308012090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 1138308012091 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 1138308012092 amphipathic channel; other site 1138308012093 Asn-Pro-Ala signature motifs; other site 1138308012094 glycerol kinase; Provisional; Region: glpK; PRK00047 1138308012095 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1138308012096 N- and C-terminal domain interface [polypeptide binding]; other site 1138308012097 active site 1138308012098 MgATP binding site [chemical binding]; other site 1138308012099 catalytic site [active] 1138308012100 metal binding site [ion binding]; metal-binding site 1138308012101 glycerol binding site [chemical binding]; other site 1138308012102 homotetramer interface [polypeptide binding]; other site 1138308012103 homodimer interface [polypeptide binding]; other site 1138308012104 FBP binding site [chemical binding]; other site 1138308012105 protein IIAGlc interface [polypeptide binding]; other site 1138308012106 hypothetical protein; Provisional; Region: PRK11020 1138308012107 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1138308012108 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1138308012109 L-lactate permease; Provisional; Region: PRK10420 1138308012110 glycolate transporter; Provisional; Region: PRK09695 1138308012111 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 1138308012112 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308012113 DNA-binding site [nucleotide binding]; DNA binding site 1138308012114 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1138308012115 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1138308012116 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 1138308012117 active site 1138308012118 substrate binding site [chemical binding]; other site 1138308012119 FMN binding site [chemical binding]; other site 1138308012120 putative catalytic residues [active] 1138308012121 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 1138308012122 MOSC domain; Region: MOSC; pfam03473 1138308012123 3-alpha domain; Region: 3-alpha; pfam03475 1138308012124 superoxide dismutase; Provisional; Region: PRK10925 1138308012125 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1138308012126 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1138308012127 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 1138308012128 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 1138308012129 transcriptional activator RhaR; Provisional; Region: PRK13502 1138308012130 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1138308012131 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308012132 transcriptional activator RhaS; Provisional; Region: PRK13503 1138308012133 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1138308012134 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308012135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308012136 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 1138308012137 N- and C-terminal domain interface [polypeptide binding]; other site 1138308012138 active site 1138308012139 putative catalytic site [active] 1138308012140 metal binding site [ion binding]; metal-binding site 1138308012141 ATP binding site [chemical binding]; other site 1138308012142 rhamnulokinase; Provisional; Region: rhaB; PRK10640 1138308012143 carbohydrate binding site [chemical binding]; other site 1138308012144 L-rhamnose isomerase; Provisional; Region: PRK01076 1138308012145 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1138308012146 intersubunit interface [polypeptide binding]; other site 1138308012147 active site 1138308012148 Zn2+ binding site [ion binding]; other site 1138308012149 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1138308012150 active site 1138308012151 NAD binding site [chemical binding]; other site 1138308012152 metal binding site [ion binding]; metal-binding site 1138308012153 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1138308012154 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 1138308012155 galactoside permease; Reviewed; Region: lacY; PRK09528 1138308012156 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 1138308012157 putative substrate translocation pore; other site 1138308012158 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1138308012159 Melibiase; Region: Melibiase; pfam02065 1138308012160 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1138308012161 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1138308012162 DNA binding site [nucleotide binding] 1138308012163 domain linker motif; other site 1138308012164 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1138308012165 ligand binding site [chemical binding]; other site 1138308012166 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1138308012167 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 1138308012168 salt bridge; other site 1138308012169 non-specific DNA binding site [nucleotide binding]; other site 1138308012170 sequence-specific DNA binding site [nucleotide binding]; other site 1138308012171 Cupin domain; Region: Cupin_2; cl17218 1138308012172 AzlC protein; Region: AzlC; cl00570 1138308012173 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1138308012174 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 1138308012175 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1138308012176 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 1138308012177 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 1138308012178 molybdopterin cofactor binding site; other site 1138308012179 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 1138308012180 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 1138308012181 molybdopterin cofactor binding site; other site 1138308012182 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1138308012183 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1138308012184 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 1138308012185 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1138308012186 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1138308012187 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1138308012188 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 1138308012189 non-specific DNA binding site [nucleotide binding]; other site 1138308012190 salt bridge; other site 1138308012191 sequence-specific DNA binding site [nucleotide binding]; other site 1138308012192 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1138308012193 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1138308012194 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1138308012195 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1138308012196 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1138308012197 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1138308012198 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 1138308012199 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1138308012200 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1138308012201 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1138308012202 nucleotide binding site [chemical binding]; other site 1138308012203 putative alcohol dehydrogenase; Provisional; Region: PRK09860 1138308012204 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1138308012205 dimer interface [polypeptide binding]; other site 1138308012206 active site 1138308012207 metal binding site [ion binding]; metal-binding site 1138308012208 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1138308012209 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1138308012210 G1 box; other site 1138308012211 putative GEF interaction site [polypeptide binding]; other site 1138308012212 GTP/Mg2+ binding site [chemical binding]; other site 1138308012213 Switch I region; other site 1138308012214 G2 box; other site 1138308012215 G3 box; other site 1138308012216 Switch II region; other site 1138308012217 G4 box; other site 1138308012218 G5 box; other site 1138308012219 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1138308012220 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1138308012221 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1138308012222 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1138308012223 selenocysteine synthase; Provisional; Region: PRK04311 1138308012224 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1138308012225 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1138308012226 putative glutathione S-transferase; Provisional; Region: PRK10357 1138308012227 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 1138308012228 putative C-terminal domain interface [polypeptide binding]; other site 1138308012229 putative GSH binding site (G-site) [chemical binding]; other site 1138308012230 putative dimer interface [polypeptide binding]; other site 1138308012231 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1138308012232 dimer interface [polypeptide binding]; other site 1138308012233 N-terminal domain interface [polypeptide binding]; other site 1138308012234 putative substrate binding pocket (H-site) [chemical binding]; other site 1138308012235 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1138308012236 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1138308012237 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1138308012238 active site 1138308012239 P-loop; other site 1138308012240 phosphorylation site [posttranslational modification] 1138308012241 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 1138308012242 active site 1138308012243 phosphorylation site [posttranslational modification] 1138308012244 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1138308012245 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1138308012246 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1138308012247 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1138308012248 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 1138308012249 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1138308012250 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1138308012251 putative active site [active] 1138308012252 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1138308012253 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 1138308012254 FAD binding pocket [chemical binding]; other site 1138308012255 FAD binding motif [chemical binding]; other site 1138308012256 phosphate binding motif [ion binding]; other site 1138308012257 beta-alpha-beta structure motif; other site 1138308012258 NAD binding pocket [chemical binding]; other site 1138308012259 Predicted membrane protein [Function unknown]; Region: COG3152 1138308012260 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 1138308012261 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 1138308012262 triosephosphate isomerase; Provisional; Region: PRK14567 1138308012263 substrate binding site [chemical binding]; other site 1138308012264 dimer interface [polypeptide binding]; other site 1138308012265 catalytic triad [active] 1138308012266 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 1138308012267 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1138308012268 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112 1138308012269 RHS Repeat; Region: RHS_repeat; pfam05593 1138308012270 RHS Repeat; Region: RHS_repeat; pfam05593 1138308012271 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1138308012272 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1138308012273 RHS Repeat; Region: RHS_repeat; pfam05593 1138308012274 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1138308012275 RHS protein; Region: RHS; pfam03527 1138308012276 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1138308012277 PAAR motif; Region: PAAR_motif; pfam05488 1138308012278 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1138308012279 RHS Repeat; Region: RHS_repeat; pfam05593 1138308012280 RHS Repeat; Region: RHS_repeat; pfam05593 1138308012281 RHS Repeat; Region: RHS_repeat; cl11982 1138308012282 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1138308012283 RHS Repeat; Region: RHS_repeat; cl11982 1138308012284 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1138308012285 RHS protein; Region: RHS; pfam03527 1138308012286 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1138308012287 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 1138308012288 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 1138308012289 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1138308012290 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1138308012291 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1138308012292 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1138308012293 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1138308012294 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1138308012295 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1138308012296 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1138308012297 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1138308012298 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1138308012299 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 1138308012300 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1138308012301 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1138308012302 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1138308012303 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1138308012304 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1138308012305 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1138308012306 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1138308012307 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1138308012308 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1138308012309 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1138308012310 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1138308012311 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1138308012312 PAAR motif; Region: PAAR_motif; pfam05488 1138308012313 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1138308012314 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1138308012315 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1138308012316 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1138308012317 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 1138308012318 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1138308012319 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1138308012320 active site 1138308012321 ATP binding site [chemical binding]; other site 1138308012322 substrate binding site [chemical binding]; other site 1138308012323 activation loop (A-loop); other site 1138308012324 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1138308012325 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 1138308012326 Walker A motif; other site 1138308012327 ATP binding site [chemical binding]; other site 1138308012328 Walker B motif; other site 1138308012329 arginine finger; other site 1138308012330 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 1138308012331 Walker A motif; other site 1138308012332 ATP binding site [chemical binding]; other site 1138308012333 Walker B motif; other site 1138308012334 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1138308012335 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1138308012336 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1138308012337 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1138308012338 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1138308012339 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 1138308012340 ImpE protein; Region: ImpE; pfam07024 1138308012341 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1138308012342 active site 1138308012343 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 1138308012344 phosphopeptide binding site; other site 1138308012345 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1138308012346 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1138308012347 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1138308012348 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1138308012349 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1138308012350 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1138308012351 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 1138308012352 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1138308012353 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1138308012354 G1 box; other site 1138308012355 GTP/Mg2+ binding site [chemical binding]; other site 1138308012356 G2 box; other site 1138308012357 Switch I region; other site 1138308012358 G3 box; other site 1138308012359 Switch II region; other site 1138308012360 G4 box; other site 1138308012361 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1138308012362 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1138308012363 hypothetical protein; Provisional; Region: PRK07033 1138308012364 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1138308012365 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1138308012366 ligand binding site [chemical binding]; other site 1138308012367 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1138308012368 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1138308012369 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1138308012370 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308012371 Coenzyme A binding pocket [chemical binding]; other site 1138308012372 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 1138308012373 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 1138308012374 putative substrate translocation pore; other site 1138308012375 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1138308012376 Domain of unknown function (DUF202); Region: DUF202; cl09954 1138308012377 Predicted membrane protein [Function unknown]; Region: COG2149 1138308012378 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1138308012379 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 1138308012380 NAD binding site [chemical binding]; other site 1138308012381 sugar binding site [chemical binding]; other site 1138308012382 divalent metal binding site [ion binding]; other site 1138308012383 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1138308012384 dimer interface [polypeptide binding]; other site 1138308012385 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 1138308012386 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1138308012387 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 1138308012388 active site turn [active] 1138308012389 phosphorylation site [posttranslational modification] 1138308012390 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1138308012391 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308012392 DNA-binding site [nucleotide binding]; DNA binding site 1138308012393 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1138308012394 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1138308012395 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1138308012396 putative dimer interface [polypeptide binding]; other site 1138308012397 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1138308012398 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1138308012399 putative dimer interface [polypeptide binding]; other site 1138308012400 hypothetical protein; Provisional; Region: PRK11616 1138308012401 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 1138308012402 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1138308012403 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1138308012404 putative ligand binding site [chemical binding]; other site 1138308012405 NAD binding site [chemical binding]; other site 1138308012406 catalytic site [active] 1138308012407 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1138308012408 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 1138308012409 putative substrate translocation pore; other site 1138308012410 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 1138308012411 D-galactonate transporter; Region: 2A0114; TIGR00893 1138308012412 putative substrate translocation pore; other site 1138308012413 galactonate dehydratase; Provisional; Region: PRK14017 1138308012414 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 1138308012415 putative active site pocket [active] 1138308012416 putative metal binding site [ion binding]; other site 1138308012417 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1138308012418 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1138308012419 active site 1138308012420 intersubunit interface [polypeptide binding]; other site 1138308012421 catalytic residue [active] 1138308012422 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1138308012423 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1138308012424 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1138308012425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1138308012426 DNA-binding site [nucleotide binding]; DNA binding site 1138308012427 FCD domain; Region: FCD; pfam07729 1138308012428 small toxic polypeptide; Provisional; Region: PRK09738 1138308012429 sugar phosphate phosphatase; Provisional; Region: PRK10513 1138308012430 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 1138308012431 active site 1138308012432 motif I; other site 1138308012433 motif II; other site 1138308012434 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 1138308012435 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1138308012436 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 1138308012437 Mg2+ binding site [ion binding]; other site 1138308012438 G-X-G motif; other site 1138308012439 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 1138308012440 anchoring element; other site 1138308012441 dimer interface [polypeptide binding]; other site 1138308012442 ATP binding site [chemical binding]; other site 1138308012443 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 1138308012444 active site 1138308012445 putative metal-binding site [ion binding]; other site 1138308012446 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1138308012447 recF protein; Region: recf; TIGR00611 1138308012448 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308012449 Walker A/P-loop; other site 1138308012450 ATP binding site [chemical binding]; other site 1138308012451 Q-loop/lid; other site 1138308012452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1138308012453 ABC transporter signature motif; other site 1138308012454 Walker B; other site 1138308012455 D-loop; other site 1138308012456 H-loop/switch region; other site 1138308012457 DNA polymerase III subunit beta; Validated; Region: PRK05643 1138308012458 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 1138308012459 putative DNA binding surface [nucleotide binding]; other site 1138308012460 dimer interface [polypeptide binding]; other site 1138308012461 beta-clamp/clamp loader binding surface; other site 1138308012462 beta-clamp/translesion DNA polymerase binding surface; other site 1138308012463 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1138308012464 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1138308012465 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 1138308012466 Walker A motif; other site 1138308012467 ATP binding site [chemical binding]; other site 1138308012468 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; cl17189 1138308012469 Walker B motif; other site 1138308012470 arginine finger; other site 1138308012471 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 1138308012472 DnaA box-binding interface [nucleotide binding]; other site 1138308012473 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1138308012474 membrane protein insertase; Provisional; Region: PRK01318 1138308012475 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1138308012476 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1138308012477 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1138308012478 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1138308012479 G1 box; other site 1138308012480 GTP/Mg2+ binding site [chemical binding]; other site 1138308012481 Switch I region; other site 1138308012482 G2 box; other site 1138308012483 Switch II region; other site 1138308012484 G3 box; other site 1138308012485 G4 box; other site 1138308012486 G5 box; other site 1138308012487 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1138308012488 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 1138308012489 active site residue [active] 1138308012490 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 1138308012491 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1138308012492 ligand binding site [chemical binding]; other site 1138308012493 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1138308012494 AzlC protein; Region: AzlC; cl00570 1138308012495 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1138308012496 Coenzyme A binding pocket [chemical binding]; other site 1138308012497 Biofilm formation and stress response factor; Region: BsmA; pfam10014 1138308012498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1138308012499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1138308012500 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1138308012501 Predicted flavoprotein [General function prediction only]; Region: COG0431 1138308012502 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1138308012503 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1138308012504 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 1138308012505 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 1138308012506 motif II; other site 1138308012507 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 1138308012508 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1138308012509 transcriptional regulator PhoU; Provisional; Region: PRK11115 1138308012510 PhoU domain; Region: PhoU; pfam01895 1138308012511 PhoU domain; Region: PhoU; pfam01895 1138308012512 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1138308012513 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1138308012514 Walker A/P-loop; other site 1138308012515 ATP binding site [chemical binding]; other site 1138308012516 Q-loop/lid; other site 1138308012517 ABC transporter signature motif; other site 1138308012518 Walker B; other site 1138308012519 D-loop; other site 1138308012520 H-loop/switch region; other site 1138308012521 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1138308012522 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 1138308012523 dimer interface [polypeptide binding]; other site 1138308012524 conserved gate region; other site 1138308012525 putative PBP binding loops; other site 1138308012526 ABC-ATPase subunit interface; other site 1138308012527 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1138308012528 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 1138308012529 dimer interface [polypeptide binding]; other site 1138308012530 conserved gate region; other site 1138308012531 putative PBP binding loops; other site 1138308012532 ABC-ATPase subunit interface; other site 1138308012533 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 1138308012534 substrate binding pocket [chemical binding]; other site 1138308012535 membrane-bound complex binding site; other site 1138308012536 hinge residues; other site 1138308012537 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 1138308012538 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1138308012539 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 1138308012540 glutaminase active site [active] 1138308012541 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 1138308012542 dimer interface [polypeptide binding]; other site 1138308012543 active site 1138308012544 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 1138308012545 dimer interface [polypeptide binding]; other site 1138308012546 active site 1138308012547 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1138308012548 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1138308012549 Substrate binding site; other site 1138308012550 Mg++ binding site; other site 1138308012551 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 1138308012552 active site 1138308012553 substrate binding site [chemical binding]; other site 1138308012554 CoA binding site [chemical binding]; other site 1138308012555 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1138308012556 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1138308012557 gamma subunit interface [polypeptide binding]; other site 1138308012558 epsilon subunit interface [polypeptide binding]; other site 1138308012559 LBP interface [polypeptide binding]; other site 1138308012560 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1138308012561 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1138308012562 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 1138308012563 alpha subunit interaction interface [polypeptide binding]; other site 1138308012564 Walker A motif; other site 1138308012565 ATP binding site [chemical binding]; other site 1138308012566 Walker B motif; other site 1138308012567 inhibitor binding site; inhibition site 1138308012568 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1138308012569 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1138308012570 core domain interface [polypeptide binding]; other site 1138308012571 delta subunit interface [polypeptide binding]; other site 1138308012572 epsilon subunit interface [polypeptide binding]; other site 1138308012573 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1138308012574 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1138308012575 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 1138308012576 beta subunit interaction interface [polypeptide binding]; other site 1138308012577 Walker A motif; other site 1138308012578 ATP binding site [chemical binding]; other site 1138308012579 Walker B motif; other site 1138308012580 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1138308012581 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1138308012582 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1138308012583 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1138308012584 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1138308012585 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1138308012586 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1138308012587 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1138308012588 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 1138308012589 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1138308012590 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 1138308012591 S-adenosylmethionine binding site [chemical binding]; other site 1138308012592 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1138308012593 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1138308012594 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932