-- dump date 20140618_223203 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1006007000001 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1006007000002 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1006007000003 OxaA-like protein precursor; Validated; Region: PRK02944 1006007000004 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1006007000005 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1006007000006 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1006007000007 G-X-X-G motif; other site 1006007000008 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1006007000009 RxxxH motif; other site 1006007000010 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1006007000011 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1006007000012 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1006007000013 G1 box; other site 1006007000014 GTP/Mg2+ binding site [chemical binding]; other site 1006007000015 Switch I region; other site 1006007000016 G2 box; other site 1006007000017 Switch II region; other site 1006007000018 G3 box; other site 1006007000019 G4 box; other site 1006007000020 G5 box; other site 1006007000021 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1006007000022 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1006007000023 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1006007000024 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1006007000025 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1006007000026 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 1006007000027 S-adenosylmethionine binding site [chemical binding]; other site 1006007000028 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 1006007000029 ParB-like nuclease domain; Region: ParBc; pfam02195 1006007000030 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1006007000031 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1006007000032 P-loop; other site 1006007000033 Magnesium ion binding site [ion binding]; other site 1006007000034 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 1006007000035 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1006007000036 Magnesium ion binding site [ion binding]; other site 1006007000037 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1006007000038 ParB-like nuclease domain; Region: ParB; smart00470 1006007000039 KorB domain; Region: KorB; pfam08535 1006007000040 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1006007000041 putative sporulation protein YyaC; Region: spore_YyaC; TIGR02841 1006007000042 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1006007000043 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1006007000044 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1006007000045 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1006007000046 GTP-binding protein YchF; Reviewed; Region: PRK09601 1006007000047 YchF GTPase; Region: YchF; cd01900 1006007000048 G1 box; other site 1006007000049 GTP/Mg2+ binding site [chemical binding]; other site 1006007000050 Switch I region; other site 1006007000051 G2 box; other site 1006007000052 Switch II region; other site 1006007000053 G3 box; other site 1006007000054 G4 box; other site 1006007000055 G5 box; other site 1006007000056 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 1006007000057 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1006007000058 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1006007000059 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 1006007000060 dimer interface [polypeptide binding]; other site 1006007000061 ssDNA binding site [nucleotide binding]; other site 1006007000062 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1006007000063 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1006007000064 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 1006007000065 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1006007000066 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1006007000067 DHH family; Region: DHH; pfam01368 1006007000068 DHHA1 domain; Region: DHHA1; pfam02272 1006007000069 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1006007000070 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1006007000071 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1006007000072 replicative DNA helicase; Provisional; Region: PRK05748 1006007000073 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1006007000074 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 1006007000075 Walker A motif; other site 1006007000076 ATP binding site [chemical binding]; other site 1006007000077 Walker B motif; other site 1006007000078 DNA binding loops [nucleotide binding] 1006007000079 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1006007000080 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 1006007000081 GDP-binding site [chemical binding]; other site 1006007000082 ACT binding site; other site 1006007000083 IMP binding site; other site 1006007000084 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007000085 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 1006007000086 active site 1006007000087 phosphorylation site [posttranslational modification] 1006007000088 intermolecular recognition site; other site 1006007000089 dimerization interface [polypeptide binding]; other site 1006007000090 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 1006007000091 DNA binding site [nucleotide binding] 1006007000092 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1006007000093 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 1006007000094 dimerization interface [polypeptide binding]; other site 1006007000095 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 1006007000096 putative active site [active] 1006007000097 heme pocket [chemical binding]; other site 1006007000098 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 1006007000099 dimer interface [polypeptide binding]; other site 1006007000100 phosphorylation site [posttranslational modification] 1006007000101 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 1006007000102 ATP binding site [chemical binding]; other site 1006007000103 Mg2+ binding site [ion binding]; other site 1006007000104 G-X-G motif; other site 1006007000105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 1006007000106 YycH protein; Region: YycH; pfam07435 1006007000107 YycH protein; Region: YycI; pfam09648 1006007000108 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1006007000109 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1006007000110 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 1006007000111 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1006007000112 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 1006007000113 protein binding site [polypeptide binding]; other site 1006007000114 YyzF-like protein; Region: YyzF; cl15733 1006007000115 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1006007000116 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1006007000117 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 1006007000118 FMN binding site [chemical binding]; other site 1006007000119 active site 1006007000120 catalytic residues [active] 1006007000121 substrate binding site [chemical binding]; other site 1006007000122 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1006007000123 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1006007000124 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1006007000125 putative RNA binding site [nucleotide binding]; other site 1006007000126 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 1006007000127 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1006007000128 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 1006007000129 transmembrane helices; other site 1006007000130 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 1006007000131 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 1006007000132 active site 1006007000133 Na/Ca binding site [ion binding]; other site 1006007000134 catalytic site [active] 1006007000135 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 1006007000136 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 1006007000137 G-X-G motif; other site 1006007000138 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1006007000139 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1006007000140 tetramer interface [polypeptide binding]; other site 1006007000141 heme binding pocket [chemical binding]; other site 1006007000142 NADPH binding site [chemical binding]; other site 1006007000143 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1006007000144 Carbon starvation protein CstA; Region: CstA; pfam02554 1006007000145 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1006007000146 gamma-glutamyl kinase; Provisional; Region: PRK05429 1006007000147 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 1006007000148 nucleotide binding site [chemical binding]; other site 1006007000149 homotetrameric interface [polypeptide binding]; other site 1006007000150 putative phosphate binding site [ion binding]; other site 1006007000151 putative allosteric binding site; other site 1006007000152 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1006007000153 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1006007000154 putative catalytic cysteine [active] 1006007000155 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1006007000156 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 1006007000157 putative substrate translocation pore; other site 1006007000158 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 1006007000159 Putative esterase; Region: Esterase; pfam00756 1006007000160 S-formylglutathione hydrolase; Region: PLN02442 1006007000161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1006007000162 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007000163 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007000164 DNA binding site [nucleotide binding] 1006007000165 domain linker motif; other site 1006007000166 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 1006007000167 dimerization interface [polypeptide binding]; other site 1006007000168 ligand binding site [chemical binding]; other site 1006007000169 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1006007000170 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1006007000171 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1006007000172 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1006007000173 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1006007000174 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1006007000175 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1006007000176 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 1006007000177 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1006007000178 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1006007000179 Walker A/P-loop; other site 1006007000180 ATP binding site [chemical binding]; other site 1006007000181 Q-loop/lid; other site 1006007000182 ABC transporter signature motif; other site 1006007000183 Walker B; other site 1006007000184 D-loop; other site 1006007000185 H-loop/switch region; other site 1006007000186 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 1006007000187 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1006007000188 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007000189 Walker A/P-loop; other site 1006007000190 ATP binding site [chemical binding]; other site 1006007000191 Q-loop/lid; other site 1006007000192 ABC transporter signature motif; other site 1006007000193 Walker B; other site 1006007000194 D-loop; other site 1006007000195 H-loop/switch region; other site 1006007000196 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1006007000197 TrkA-N domain; Region: TrkA_N; pfam02254 1006007000198 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1006007000199 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1006007000200 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 1006007000201 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1006007000202 Ligand binding site; other site 1006007000203 Putative Catalytic site; other site 1006007000204 DXD motif; other site 1006007000205 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1006007000206 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1006007000207 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 1006007000208 putative catalytic site [active] 1006007000209 putative metal binding site [ion binding]; other site 1006007000210 putative phosphate binding site [ion binding]; other site 1006007000211 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1006007000212 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 1006007000213 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 1006007000214 active site turn [active] 1006007000215 phosphorylation site [posttranslational modification] 1006007000216 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1006007000217 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 1006007000218 motif II; other site 1006007000219 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 1006007000220 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1006007000221 active site 1006007000222 motif I; other site 1006007000223 motif II; other site 1006007000224 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 1006007000225 motif II; other site 1006007000226 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 1006007000227 dimer interface [polypeptide binding]; other site 1006007000228 substrate binding site [chemical binding]; other site 1006007000229 ATP binding site [chemical binding]; other site 1006007000230 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1006007000231 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1006007000232 hexamer interface [polypeptide binding]; other site 1006007000233 ligand binding site [chemical binding]; other site 1006007000234 putative active site [active] 1006007000235 NAD(P) binding site [chemical binding]; other site 1006007000236 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1006007000237 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1006007000238 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1006007000239 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1006007000240 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1006007000241 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1006007000242 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1006007000243 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1006007000244 Staygreen protein; Region: Staygreen; pfam12638 1006007000245 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1006007000246 ligand binding site [chemical binding]; other site 1006007000247 active site 1006007000248 UGI interface [polypeptide binding]; other site 1006007000249 catalytic site [active] 1006007000250 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1006007000251 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; pfam09671 1006007000252 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1006007000253 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1006007000254 putative heme peroxidase; Provisional; Region: PRK12276 1006007000255 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1006007000256 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1006007000257 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 1006007000258 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 1006007000259 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1006007000260 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1006007000261 Zn2+ binding site [ion binding]; other site 1006007000262 Mg2+ binding site [ion binding]; other site 1006007000263 Uncharacterized conserved protein [Function unknown]; Region: COG3465 1006007000264 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 1006007000265 active site 1 [active] 1006007000266 dimer interface [polypeptide binding]; other site 1006007000267 hexamer interface [polypeptide binding]; other site 1006007000268 active site 2 [active] 1006007000269 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 1006007000270 Peptidase family M50; Region: Peptidase_M50; pfam02163 1006007000271 active site 1006007000272 putative substrate binding region [chemical binding]; other site 1006007000273 YwhD family; Region: YwhD; pfam08741 1006007000274 Transglycosylase; Region: Transgly; pfam00912 1006007000275 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1006007000276 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1006007000277 spermidine synthase; Provisional; Region: PRK00811 1006007000278 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 1006007000279 agmatinase; Region: agmatinase; TIGR01230 1006007000280 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 1006007000281 putative active site [active] 1006007000282 Mn binding site [ion binding]; other site 1006007000283 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1006007000284 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1006007000285 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1006007000286 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1006007000287 active site 1006007000288 HIGH motif; other site 1006007000289 KMSK motif region; other site 1006007000290 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1006007000291 tRNA binding surface [nucleotide binding]; other site 1006007000292 anticodon binding site; other site 1006007000293 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 1006007000294 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1006007000295 PLD-like domain; Region: PLDc_2; pfam13091 1006007000296 putative active site [active] 1006007000297 catalytic site [active] 1006007000298 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1006007000299 PLD-like domain; Region: PLDc_2; pfam13091 1006007000300 putative active site [active] 1006007000301 catalytic site [active] 1006007000302 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1006007000303 4Fe-4S binding domain; Region: Fer4; cl02805 1006007000304 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1006007000305 Cysteine-rich domain; Region: CCG; pfam02754 1006007000306 Cysteine-rich domain; Region: CCG; pfam02754 1006007000307 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 1006007000308 dimer interface [polypeptide binding]; other site 1006007000309 active site 1006007000310 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1006007000311 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1006007000312 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1006007000313 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1006007000314 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1006007000315 FAD binding site [chemical binding]; other site 1006007000316 homotetramer interface [polypeptide binding]; other site 1006007000317 substrate binding pocket [chemical binding]; other site 1006007000318 catalytic base [active] 1006007000319 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1006007000320 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1006007000321 FAD binding site [chemical binding]; other site 1006007000322 homotetramer interface [polypeptide binding]; other site 1006007000323 substrate binding pocket [chemical binding]; other site 1006007000324 catalytic base [active] 1006007000325 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007000326 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007000327 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1006007000328 B12 binding site [chemical binding]; other site 1006007000329 cobalt ligand [ion binding]; other site 1006007000330 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 1006007000331 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 1006007000332 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1006007000333 CTP synthetase; Validated; Region: pyrG; PRK05380 1006007000334 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 1006007000335 Catalytic site [active] 1006007000336 active site 1006007000337 UTP binding site [chemical binding]; other site 1006007000338 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1006007000339 active site 1006007000340 putative oxyanion hole; other site 1006007000341 catalytic triad [active] 1006007000342 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 1006007000343 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007000344 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 1006007000345 active site 1006007000346 phosphorylation site [posttranslational modification] 1006007000347 intermolecular recognition site; other site 1006007000348 dimerization interface [polypeptide binding]; other site 1006007000349 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1006007000350 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1006007000351 intersubunit interface [polypeptide binding]; other site 1006007000352 active site 1006007000353 zinc binding site [ion binding]; other site 1006007000354 Na+ binding site [ion binding]; other site 1006007000355 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1006007000356 active site 1006007000357 intersubunit interactions; other site 1006007000358 catalytic residue [active] 1006007000359 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1006007000360 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 1006007000361 hinge; other site 1006007000362 active site 1006007000363 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1006007000364 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1006007000365 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 1006007000366 RNA binding site [nucleotide binding]; other site 1006007000367 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 1006007000368 multimer interface [polypeptide binding]; other site 1006007000369 Walker A motif; other site 1006007000370 ATP binding site [chemical binding]; other site 1006007000371 Walker B motif; other site 1006007000372 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1006007000373 thymidine kinase; Provisional; Region: PRK04296 1006007000374 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1006007000375 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1006007000376 RF-1 domain; Region: RF-1; pfam00472 1006007000377 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1006007000378 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 1006007000379 S-adenosylmethionine binding site [chemical binding]; other site 1006007000380 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1006007000381 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 1006007000382 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007000383 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1006007000384 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1006007000385 hypothetical protein; Provisional; Region: PRK13690 1006007000386 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1006007000387 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 1006007000388 dimer interface [polypeptide binding]; other site 1006007000389 active site 1006007000390 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1006007000391 folate binding site [chemical binding]; other site 1006007000392 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1006007000393 active site 1006007000394 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1006007000395 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 1006007000396 active site 1006007000397 homodimer interface [polypeptide binding]; other site 1006007000398 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1006007000399 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1006007000400 putative active site [active] 1006007000401 catalytic triad [active] 1006007000402 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 1006007000403 PA/protease or protease-like domain interface [polypeptide binding]; other site 1006007000404 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1006007000405 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 1006007000406 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1006007000407 ATP synthase I chain; Region: ATP_synt_I; pfam03899 1006007000408 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1006007000409 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1006007000410 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1006007000411 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1006007000412 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1006007000413 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1006007000414 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1006007000415 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1006007000416 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1006007000417 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 1006007000418 beta subunit interaction interface [polypeptide binding]; other site 1006007000419 Walker A motif; other site 1006007000420 ATP binding site [chemical binding]; other site 1006007000421 Walker B motif; other site 1006007000422 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1006007000423 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1006007000424 core domain interface [polypeptide binding]; other site 1006007000425 delta subunit interface [polypeptide binding]; other site 1006007000426 epsilon subunit interface [polypeptide binding]; other site 1006007000427 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1006007000428 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1006007000429 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 1006007000430 alpha subunit interaction interface [polypeptide binding]; other site 1006007000431 Walker A motif; other site 1006007000432 ATP binding site [chemical binding]; other site 1006007000433 Walker B motif; other site 1006007000434 inhibitor binding site; inhibition site 1006007000435 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1006007000436 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1006007000437 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1006007000438 gamma subunit interface [polypeptide binding]; other site 1006007000439 epsilon subunit interface [polypeptide binding]; other site 1006007000440 LBP interface [polypeptide binding]; other site 1006007000441 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 1006007000442 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 1006007000443 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1006007000444 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 1006007000445 hinge; other site 1006007000446 active site 1006007000447 Stage II sporulation protein; Region: SpoIID; pfam08486 1006007000448 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1006007000449 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1006007000450 Peptidase family M23; Region: Peptidase_M23; pfam01551 1006007000451 Stage III sporulation protein D; Region: SpoIIID; pfam12116 1006007000452 rod shape-determining protein Mbl; Provisional; Region: PRK13928 1006007000453 MreB and similar proteins; Region: MreB_like; cd10225 1006007000454 nucleotide binding site [chemical binding]; other site 1006007000455 Mg binding site [ion binding]; other site 1006007000456 putative protofilament interaction site [polypeptide binding]; other site 1006007000457 RodZ interaction site [polypeptide binding]; other site 1006007000458 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1006007000459 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1006007000460 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1006007000461 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1006007000462 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1006007000463 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1006007000464 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 1006007000465 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007000466 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 1006007000467 non-specific DNA binding site [nucleotide binding]; other site 1006007000468 salt bridge; other site 1006007000469 sequence-specific DNA binding site [nucleotide binding]; other site 1006007000470 YwpF-like protein; Region: YwpF; pfam14183 1006007000471 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1006007000472 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 1006007000473 dimer interface [polypeptide binding]; other site 1006007000474 ssDNA binding site [nucleotide binding]; other site 1006007000475 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1006007000476 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007000477 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1006007000478 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007000479 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1006007000480 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007000481 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007000482 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007000483 SNF2 Helicase protein; Region: DUF3670; pfam12419 1006007000484 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1006007000485 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 1006007000486 ATP binding site [chemical binding]; other site 1006007000487 putative Mg++ binding site [ion binding]; other site 1006007000488 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 1006007000489 nucleotide binding region [chemical binding]; other site 1006007000490 ATP-binding site [chemical binding]; other site 1006007000491 Uncharacterized conserved protein [Function unknown]; Region: COG4715 1006007000492 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1006007000493 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1006007000494 active site 1006007000495 tetramer interface; other site 1006007000496 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1006007000497 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1006007000498 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1006007000499 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1006007000500 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1006007000501 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 1006007000502 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1006007000503 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1006007000504 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1006007000505 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 1006007000506 Mg++ binding site [ion binding]; other site 1006007000507 putative catalytic motif [active] 1006007000508 substrate binding site [chemical binding]; other site 1006007000509 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1006007000510 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 1006007000511 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1006007000512 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1006007000513 Sensor protein DegS; Region: DegS; pfam05384 1006007000514 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1006007000515 Histidine kinase; Region: HisKA_3; pfam07730 1006007000516 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 1006007000517 ATP binding site [chemical binding]; other site 1006007000518 Mg2+ binding site [ion binding]; other site 1006007000519 G-X-G motif; other site 1006007000520 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1006007000521 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 1006007000522 active site 1006007000523 phosphorylation site [posttranslational modification] 1006007000524 intermolecular recognition site; other site 1006007000525 dimerization interface [polypeptide binding]; other site 1006007000526 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 1006007000527 DNA binding residues [nucleotide binding] 1006007000528 dimerization interface [polypeptide binding]; other site 1006007000529 Flagellar protein FliS; Region: FliS; cl00654 1006007000530 Protein of unknown function (DUF327); Region: DUF327; pfam03885 1006007000531 EDD domain protein, DegV family; Region: DegV; TIGR00762 1006007000532 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1006007000533 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1006007000534 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 1006007000535 ATP binding site [chemical binding]; other site 1006007000536 putative Mg++ binding site [ion binding]; other site 1006007000537 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 1006007000538 nucleotide binding region [chemical binding]; other site 1006007000539 ATP-binding site [chemical binding]; other site 1006007000540 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1006007000541 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1006007000542 active site 1006007000543 flagellar operon protein TIGR03826; Region: YvyF 1006007000544 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1006007000545 FlgN protein; Region: FlgN; pfam05130 1006007000546 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 1006007000547 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1006007000548 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1006007000549 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 1006007000550 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1006007000551 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1006007000552 flagellar assembly protein FliW; Provisional; Region: PRK13285 1006007000553 Predicted transcriptional regulators [Transcription]; Region: COG1510 1006007000554 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1006007000555 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1006007000556 active site 1006007000557 NAD binding site [chemical binding]; other site 1006007000558 metal binding site [ion binding]; metal-binding site 1006007000559 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 1006007000560 glycine betaine aldehyde dehydrogenase; Region: BADH; TIGR01804 1006007000561 tetramerization interface [polypeptide binding]; other site 1006007000562 NAD(P) binding site [chemical binding]; other site 1006007000563 catalytic residues [active] 1006007000564 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 1006007000565 Na binding site [ion binding]; other site 1006007000566 putative glycosylation site [posttranslational modification]; other site 1006007000567 putative glycosylation site [posttranslational modification]; other site 1006007000568 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1006007000569 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 1006007000570 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1006007000571 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1006007000572 flagellar protein FliS; Validated; Region: fliS; PRK05685 1006007000573 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 1006007000574 30S subunit binding site; other site 1006007000575 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007000576 Coenzyme A binding pocket [chemical binding]; other site 1006007000577 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1006007000578 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1006007000579 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 1006007000580 nucleotide binding region [chemical binding]; other site 1006007000581 ATP-binding site [chemical binding]; other site 1006007000582 SEC-C motif; Region: SEC-C; pfam02810 1006007000583 peptide chain release factor 2; Provisional; Region: PRK06746 1006007000584 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1006007000585 RF-1 domain; Region: RF-1; pfam00472 1006007000586 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 1006007000587 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1006007000588 putative active site [active] 1006007000589 putative metal binding site [ion binding]; other site 1006007000590 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1006007000591 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 1006007000592 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1006007000593 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1006007000594 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1006007000595 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1006007000596 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1006007000597 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1006007000598 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007000599 Walker A/P-loop; other site 1006007000600 ATP binding site [chemical binding]; other site 1006007000601 Q-loop/lid; other site 1006007000602 ABC transporter signature motif; other site 1006007000603 Walker B; other site 1006007000604 D-loop; other site 1006007000605 H-loop/switch region; other site 1006007000606 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1006007000607 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1006007000608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1006007000609 prefoldin subunit beta; Provisional; Region: PRK09343 1006007000610 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1006007000611 Peptidase family M23; Region: Peptidase_M23; pfam01551 1006007000612 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1006007000613 C-terminal peptidase (prc); Region: prc; TIGR00225 1006007000614 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 1006007000615 protein binding site [polypeptide binding]; other site 1006007000616 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1006007000617 Catalytic dyad [active] 1006007000618 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007000619 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 1006007000620 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; cl11559 1006007000621 Proline dehydrogenase; Region: Pro_dh; cl03282 1006007000622 PAS domain S-box; Region: sensory_box; TIGR00229 1006007000623 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 1006007000624 putative active site [active] 1006007000625 heme pocket [chemical binding]; other site 1006007000626 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1006007000627 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 1006007000628 Walker A motif; other site 1006007000629 ATP binding site [chemical binding]; other site 1006007000630 Walker B motif; other site 1006007000631 arginine finger; other site 1006007000632 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1006007000633 excinuclease ABC subunit B; Provisional; Region: PRK05298 1006007000634 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 1006007000635 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 1006007000636 nucleotide binding region [chemical binding]; other site 1006007000637 ATP-binding site [chemical binding]; other site 1006007000638 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1006007000639 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1006007000640 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1006007000641 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1006007000642 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1006007000643 Uncharacterized conserved protein [Function unknown]; Region: COG3595 1006007000644 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1006007000645 PspC domain; Region: PspC; pfam04024 1006007000646 Predicted membrane protein [Function unknown]; Region: COG1950 1006007000647 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1006007000648 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1006007000649 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1006007000650 Hpr binding site; other site 1006007000651 active site 1006007000652 homohexamer subunit interaction site [polypeptide binding]; other site 1006007000653 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1006007000654 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 1006007000655 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 1006007000656 dimer interface [polypeptide binding]; other site 1006007000657 motif 1; other site 1006007000658 active site 1006007000659 motif 2; other site 1006007000660 motif 3; other site 1006007000661 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1006007000662 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1006007000663 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 1006007000664 dimerization interface [polypeptide binding]; other site 1006007000665 histidinol dehydrogenase; Region: hisD; TIGR00069 1006007000666 NAD binding site [chemical binding]; other site 1006007000667 product binding site; other site 1006007000668 substrate binding site [chemical binding]; other site 1006007000669 zinc binding site [ion binding]; other site 1006007000670 catalytic residues [active] 1006007000671 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1006007000672 putative active site pocket [active] 1006007000673 4-fold oligomerization interface [polypeptide binding]; other site 1006007000674 metal binding residues [ion binding]; metal-binding site 1006007000675 3-fold/trimer interface [polypeptide binding]; other site 1006007000676 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1006007000677 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1006007000678 putative active site [active] 1006007000679 oxyanion strand; other site 1006007000680 catalytic triad [active] 1006007000681 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 1006007000682 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1006007000683 catalytic residues [active] 1006007000684 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 1006007000685 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1006007000686 substrate binding site [chemical binding]; other site 1006007000687 glutamase interaction surface [polypeptide binding]; other site 1006007000688 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1006007000689 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1006007000690 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 1006007000691 metal binding site [ion binding]; metal-binding site 1006007000692 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 1006007000693 binding surface 1006007000694 TPR motif; other site 1006007000695 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 1006007000696 binding surface 1006007000697 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1006007000698 TPR motif; other site 1006007000699 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1006007000700 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1006007000701 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007000702 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 1006007000703 putative active site [active] 1006007000704 nucleotide binding site [chemical binding]; other site 1006007000705 nudix motif; other site 1006007000706 putative metal binding site [ion binding]; other site 1006007000707 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1006007000708 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1006007000709 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1006007000710 phosphate binding site [ion binding]; other site 1006007000711 putative substrate binding pocket [chemical binding]; other site 1006007000712 dimer interface [polypeptide binding]; other site 1006007000713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1006007000714 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1006007000715 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 1006007000716 dimerization domain swap beta strand [polypeptide binding]; other site 1006007000717 regulatory protein interface [polypeptide binding]; other site 1006007000718 active site 1006007000719 regulatory phosphorylation site [posttranslational modification]; other site 1006007000720 Clp protease; Region: CLP_protease; pfam00574 1006007000721 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1006007000722 oligomer interface [polypeptide binding]; other site 1006007000723 active site residues [active] 1006007000724 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1006007000725 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1006007000726 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1006007000727 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1006007000728 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1006007000729 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1006007000730 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1006007000731 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1006007000732 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1006007000733 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1006007000734 Phosphoglycerate kinase; Region: PGK; pfam00162 1006007000735 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 1006007000736 substrate binding site [chemical binding]; other site 1006007000737 hinge regions; other site 1006007000738 ADP binding site [chemical binding]; other site 1006007000739 catalytic site [active] 1006007000740 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 1006007000741 triosephosphate isomerase; Provisional; Region: PRK14565 1006007000742 substrate binding site [chemical binding]; other site 1006007000743 dimer interface [polypeptide binding]; other site 1006007000744 catalytic triad [active] 1006007000745 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1006007000746 phosphoglyceromutase; Provisional; Region: PRK05434 1006007000747 enolase; Provisional; Region: eno; PRK00077 1006007000748 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 1006007000749 dimer interface [polypeptide binding]; other site 1006007000750 metal binding site [ion binding]; metal-binding site 1006007000751 substrate binding pocket [chemical binding]; other site 1006007000752 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1006007000753 Esterase/lipase [General function prediction only]; Region: COG1647 1006007000754 ribonuclease R; Region: RNase_R; TIGR02063 1006007000755 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1006007000756 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 1006007000757 RNB domain; Region: RNB; pfam00773 1006007000758 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 1006007000759 RNA binding site [nucleotide binding]; other site 1006007000760 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 1006007000761 SmpB-tmRNA interface; other site 1006007000762 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1006007000763 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 1006007000764 dimer interface [polypeptide binding]; other site 1006007000765 conserved gate region; other site 1006007000766 putative PBP binding loops; other site 1006007000767 ABC-ATPase subunit interface; other site 1006007000768 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1006007000769 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1006007000770 Uncharacterized conserved protein [Function unknown]; Region: COG2427 1006007000771 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1006007000772 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 1006007000773 catalytic loop [active] 1006007000774 iron binding site [ion binding]; other site 1006007000775 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1006007000776 4Fe-4S binding domain; Region: Fer4; pfam00037 1006007000777 4Fe-4S binding domain; Region: Fer4; pfam00037 1006007000778 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 1006007000779 [4Fe-4S] binding site [ion binding]; other site 1006007000780 molybdopterin cofactor binding site; other site 1006007000781 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 1006007000782 molybdopterin cofactor binding site; other site 1006007000783 Uncharacterized conserved protein [Function unknown]; Region: COG5609 1006007000784 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1006007000785 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1006007000786 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 1006007000787 FeS/SAM binding site; other site 1006007000788 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1006007000789 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1006007000790 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1006007000791 GTP binding site; other site 1006007000792 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 1006007000793 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 1006007000794 ATP binding site [chemical binding]; other site 1006007000795 substrate interface [chemical binding]; other site 1006007000796 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1006007000797 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 1006007000798 dimer interface [polypeptide binding]; other site 1006007000799 putative functional site; other site 1006007000800 putative MPT binding site; other site 1006007000801 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 1006007000802 Walker A motif; other site 1006007000803 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007000804 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 1006007000805 putative DNA binding site [nucleotide binding]; other site 1006007000806 putative Zn2+ binding site [ion binding]; other site 1006007000807 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 1006007000808 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1006007000809 active site 1006007000810 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 1006007000811 dimerization interface [polypeptide binding]; other site 1006007000812 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007000813 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 1006007000814 dimer interface [polypeptide binding]; other site 1006007000815 phosphorylation site [posttranslational modification] 1006007000816 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 1006007000817 ATP binding site [chemical binding]; other site 1006007000818 Mg2+ binding site [ion binding]; other site 1006007000819 G-X-G motif; other site 1006007000820 Iron permease FTR1 family; Region: FTR1; cl00475 1006007000821 azoreductase; Provisional; Region: PRK13556 1006007000822 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007000823 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007000824 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1006007000825 putative dimerization interface [polypeptide binding]; other site 1006007000826 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1006007000827 benzoate transport; Region: 2A0115; TIGR00895 1006007000828 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 1006007000829 putative substrate translocation pore; other site 1006007000830 short chain dehydrogenase; Validated; Region: PRK08589 1006007000831 classical (c) SDRs; Region: SDR_c; cd05233 1006007000832 NAD(P) binding site [chemical binding]; other site 1006007000833 active site 1006007000834 Protein of unknown function (DUF502); Region: DUF502; cl01107 1006007000835 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007000836 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007000837 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1006007000838 Protein export membrane protein; Region: SecD_SecF; cl14618 1006007000839 Protein of unknown function (DUF4025); Region: DUF4025; pfam13217 1006007000840 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1006007000841 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 1006007000842 siderophore binding site; other site 1006007000843 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1006007000844 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 1006007000845 ABC-ATPase subunit interface; other site 1006007000846 dimer interface [polypeptide binding]; other site 1006007000847 putative PBP binding regions; other site 1006007000848 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1006007000849 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 1006007000850 ABC-ATPase subunit interface; other site 1006007000851 dimer interface [polypeptide binding]; other site 1006007000852 putative PBP binding regions; other site 1006007000853 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1006007000854 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1006007000855 Walker A/P-loop; other site 1006007000856 ATP binding site [chemical binding]; other site 1006007000857 Q-loop/lid; other site 1006007000858 ABC transporter signature motif; other site 1006007000859 Walker B; other site 1006007000860 D-loop; other site 1006007000861 H-loop/switch region; other site 1006007000862 Uncharacterized Fe-S protein [General function prediction only]; Region: FhuF; COG4114 1006007000863 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1006007000864 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1006007000865 Protein of unknown function (DUF2573); Region: DUF2573; pfam10835 1006007000866 Proline dehydrogenase; Region: Pro_dh; cl03282 1006007000867 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1006007000868 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1006007000869 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1006007000870 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1006007000871 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1006007000872 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 1006007000873 substrate binding site [chemical binding]; other site 1006007000874 oxyanion hole (OAH) forming residues; other site 1006007000875 trimer interface [polypeptide binding]; other site 1006007000876 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 1006007000877 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 1006007000878 dimer interface [polypeptide binding]; other site 1006007000879 active site 1006007000880 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1006007000881 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1006007000882 active site 1006007000883 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 1006007000884 ArsC family; Region: ArsC; pfam03960 1006007000885 putative ArsC-like catalytic residues; other site 1006007000886 putative TRX-like catalytic residues [active] 1006007000887 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 1006007000888 lipoyl attachment site [posttranslational modification]; other site 1006007000889 Protein of unknown function (DUF2553); Region: DUF2553; pfam10830 1006007000890 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 1006007000891 active site 1006007000892 metal binding site [ion binding]; metal-binding site 1006007000893 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 1006007000894 catalytic residues [active] 1006007000895 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1006007000896 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1006007000897 Walker A/P-loop; other site 1006007000898 ATP binding site [chemical binding]; other site 1006007000899 Q-loop/lid; other site 1006007000900 ABC transporter signature motif; other site 1006007000901 Walker B; other site 1006007000902 D-loop; other site 1006007000903 H-loop/switch region; other site 1006007000904 NIL domain; Region: NIL; pfam09383 1006007000905 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 1006007000906 dimer interface [polypeptide binding]; other site 1006007000907 conserved gate region; other site 1006007000908 putative PBP binding loops; other site 1006007000909 ABC-ATPase subunit interface; other site 1006007000910 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1006007000911 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1006007000912 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1006007000913 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1006007000914 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1006007000915 Walker A/P-loop; other site 1006007000916 ATP binding site [chemical binding]; other site 1006007000917 Q-loop/lid; other site 1006007000918 ABC transporter signature motif; other site 1006007000919 Walker B; other site 1006007000920 D-loop; other site 1006007000921 H-loop/switch region; other site 1006007000922 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1006007000923 FeS assembly protein SufD; Region: sufD; TIGR01981 1006007000924 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1006007000925 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 1006007000926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1006007000927 catalytic residue [active] 1006007000928 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1006007000929 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1006007000930 trimerization site [polypeptide binding]; other site 1006007000931 active site 1006007000932 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1006007000933 FeS assembly protein SufB; Region: sufB; TIGR01980 1006007000934 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1006007000935 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 1006007000936 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 1006007000937 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1006007000938 Na2 binding site [ion binding]; other site 1006007000939 putative substrate binding site 1 [chemical binding]; other site 1006007000940 Na binding site 1 [ion binding]; other site 1006007000941 putative substrate binding site 2 [chemical binding]; other site 1006007000942 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1006007000943 Peptidase family M23; Region: Peptidase_M23; pfam01551 1006007000944 lipoyl synthase; Provisional; Region: PRK05481 1006007000945 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 1006007000946 FeS/SAM binding site; other site 1006007000947 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 1006007000948 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 1006007000949 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 1006007000950 Uncharacterized conserved protein [Function unknown]; Region: COG2445 1006007000951 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1006007000952 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 1006007000953 active site 1006007000954 motif I; other site 1006007000955 motif II; other site 1006007000956 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 1006007000957 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1006007000958 tetramer interfaces [polypeptide binding]; other site 1006007000959 binuclear metal-binding site [ion binding]; other site 1006007000960 spore coat protein YutH; Region: spore_yutH; TIGR02905 1006007000961 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1006007000962 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1006007000963 dimerization interface [polypeptide binding]; other site 1006007000964 ligand binding site [chemical binding]; other site 1006007000965 NADP binding site [chemical binding]; other site 1006007000966 catalytic site [active] 1006007000967 homoserine dehydrogenase; Provisional; Region: PRK06349 1006007000968 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1006007000969 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1006007000970 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1006007000971 threonine synthase; Reviewed; Region: PRK06721 1006007000972 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 1006007000973 homodimer interface [polypeptide binding]; other site 1006007000974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007000975 catalytic residue [active] 1006007000976 homoserine kinase; Provisional; Region: PRK01212 1006007000977 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1006007000978 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1006007000979 NifU-like domain; Region: NifU; pfam01106 1006007000980 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 1006007000981 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1006007000982 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007000983 hypothetical protein; Provisional; Region: PRK13669 1006007000984 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1006007000985 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1006007000986 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1006007000987 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1006007000988 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1006007000989 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1006007000990 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007000991 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1006007000992 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007000993 Putative membrane protein; Region: YuiB; pfam14068 1006007000994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1006007000995 Divergent PAP2 family; Region: DUF212; pfam02681 1006007000996 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1006007000997 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 1006007000998 interface (dimer of trimers) [polypeptide binding]; other site 1006007000999 Substrate-binding/catalytic site; other site 1006007001000 Zn-binding sites [ion binding]; other site 1006007001001 Predicted permease [General function prediction only]; Region: COG2056 1006007001002 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1006007001003 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 1006007001004 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1006007001005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1006007001006 Zn2+ binding site [ion binding]; other site 1006007001007 Mg2+ binding site [ion binding]; other site 1006007001008 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 1006007001009 CoenzymeA binding site [chemical binding]; other site 1006007001010 subunit interaction site [polypeptide binding]; other site 1006007001011 PHB binding site; other site 1006007001012 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1006007001013 active site 1006007001014 catalytic site [active] 1006007001015 substrate binding site [chemical binding]; other site 1006007001016 Kinase associated protein B; Region: KapB; pfam08810 1006007001017 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 1006007001018 E-class dimer interface [polypeptide binding]; other site 1006007001019 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1006007001020 P-class dimer interface [polypeptide binding]; other site 1006007001021 active site 1006007001022 Cu2+ binding site [ion binding]; other site 1006007001023 Zn2+ binding site [ion binding]; other site 1006007001024 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1006007001025 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 1006007001026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007001027 homodimer interface [polypeptide binding]; other site 1006007001028 catalytic residue [active] 1006007001029 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1006007001030 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1006007001031 AsnC family; Region: AsnC_trans_reg; pfam01037 1006007001032 hypothetical protein; Validated; Region: PRK07682 1006007001033 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 1006007001034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007001035 homodimer interface [polypeptide binding]; other site 1006007001036 catalytic residue [active] 1006007001037 general stress protein 13; Validated; Region: PRK08059 1006007001038 S1_RPS1_repeat_hs4: 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_hs4; cd05692 1006007001039 RNA binding site [nucleotide binding]; other site 1006007001040 Domain of unknown function (DUF378); Region: DUF378; pfam04070 1006007001041 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1006007001042 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1006007001043 active site 1006007001044 metal binding site [ion binding]; metal-binding site 1006007001045 dimer interface [polypeptide binding]; other site 1006007001046 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12586 1006007001047 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1006007001048 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 1006007001049 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1006007001050 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1006007001051 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1006007001052 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 1006007001053 active site 1006007001054 dimer interface [polypeptide binding]; other site 1006007001055 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 1006007001056 dimer interface [polypeptide binding]; other site 1006007001057 active site 1006007001058 YugN-like family; Region: YugN; pfam08868 1006007001059 Ion channel; Region: Ion_trans_2; pfam07885 1006007001060 TrkA-N domain; Region: TrkA_N; pfam02254 1006007001061 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007001062 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1006007001063 active site 1006007001064 metal binding site [ion binding]; metal-binding site 1006007001065 Bacterial membrane-spanning protein N-terminus; Region: YojJ; pfam10372 1006007001066 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1006007001067 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1006007001068 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1006007001069 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 1006007001070 Active Sites [active] 1006007001071 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1006007001072 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 1006007001073 ATP-sulfurylase; Region: ATPS; cd00517 1006007001074 active site 1006007001075 HXXH motif; other site 1006007001076 flexible loop; other site 1006007001077 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 1006007001078 AAA domain; Region: AAA_18; pfam13238 1006007001079 ligand-binding site [chemical binding]; other site 1006007001080 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1006007001081 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 1006007001082 active site 1006007001083 SAM binding site [chemical binding]; other site 1006007001084 homodimer interface [polypeptide binding]; other site 1006007001085 AMP-binding domain protein; Validated; Region: PRK08315 1006007001086 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1006007001087 acyl-activating enzyme (AAE) consensus motif; other site 1006007001088 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1006007001089 acyl-activating enzyme (AAE) consensus motif; other site 1006007001090 putative AMP binding site [chemical binding]; other site 1006007001091 putative active site [active] 1006007001092 putative CoA binding site [chemical binding]; other site 1006007001093 glycogen branching enzyme; Provisional; Region: PRK12313 1006007001094 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1006007001095 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1006007001096 active site 1006007001097 catalytic site [active] 1006007001098 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1006007001099 glycogen synthase; Provisional; Region: glgA; PRK00654 1006007001100 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 1006007001101 homodimer interface [polypeptide binding]; other site 1006007001102 ADP-binding pocket [chemical binding]; other site 1006007001103 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 1006007001104 homodimer interface [polypeptide binding]; other site 1006007001105 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1006007001106 active site pocket [active] 1006007001107 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1006007001108 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1006007001109 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1006007001110 isochorismate synthases; Region: isochor_syn; TIGR00543 1006007001111 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1006007001112 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 1006007001113 dimer interface [polypeptide binding]; other site 1006007001114 tetramer interface [polypeptide binding]; other site 1006007001115 PYR/PP interface [polypeptide binding]; other site 1006007001116 TPP binding site [chemical binding]; other site 1006007001117 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 1006007001118 TPP-binding site; other site 1006007001119 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1006007001120 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 1006007001121 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 1006007001122 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1006007001123 substrate binding site [chemical binding]; other site 1006007001124 oxyanion hole (OAH) forming residues; other site 1006007001125 trimer interface [polypeptide binding]; other site 1006007001126 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 1006007001127 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1006007001128 acyl-activating enzyme (AAE) consensus motif; other site 1006007001129 putative AMP binding site [chemical binding]; other site 1006007001130 putative active site [active] 1006007001131 putative CoA binding site [chemical binding]; other site 1006007001132 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 1006007001133 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 1006007001134 active site 1006007001135 octamer interface [polypeptide binding]; other site 1006007001136 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 1006007001137 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1006007001138 active site 1006007001139 dimer interface [polypeptide binding]; other site 1006007001140 catalytic residues [active] 1006007001141 effector binding site; other site 1006007001142 R2 peptide binding site; other site 1006007001143 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1006007001144 dimer interface [polypeptide binding]; other site 1006007001145 putative radical transfer pathway; other site 1006007001146 diiron center [ion binding]; other site 1006007001147 tyrosyl radical; other site 1006007001148 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 1006007001149 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 1006007001150 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1006007001151 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 1006007001152 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1006007001153 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1006007001154 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 1006007001155 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1006007001156 metal binding site [ion binding]; metal-binding site 1006007001157 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1006007001158 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1006007001159 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1006007001160 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_cladeD; cd03379 1006007001161 active site clefts [active] 1006007001162 zinc binding site [ion binding]; other site 1006007001163 dimer interface [polypeptide binding]; other site 1006007001164 Haemolytic domain; Region: Haemolytic; pfam01809 1006007001165 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1006007001166 Ferritin-like domain; Region: Ferritin; pfam00210 1006007001167 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1006007001168 dimerization interface [polypeptide binding]; other site 1006007001169 DPS ferroxidase diiron center [ion binding]; other site 1006007001170 ion pore; other site 1006007001171 Holin family; Region: Phage_holin_4; pfam05105 1006007001172 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 1006007001173 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_8; cd04665 1006007001174 nudix motif; other site 1006007001175 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1006007001176 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 1006007001177 dimer interface [polypeptide binding]; other site 1006007001178 conserved gate region; other site 1006007001179 putative PBP binding loops; other site 1006007001180 ABC-ATPase subunit interface; other site 1006007001181 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1006007001182 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1006007001183 Walker A/P-loop; other site 1006007001184 ATP binding site [chemical binding]; other site 1006007001185 Q-loop/lid; other site 1006007001186 ABC transporter signature motif; other site 1006007001187 Walker B; other site 1006007001188 D-loop; other site 1006007001189 H-loop/switch region; other site 1006007001190 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1006007001191 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 1006007001192 substrate binding pocket [chemical binding]; other site 1006007001193 membrane-bound complex binding site; other site 1006007001194 hinge residues; other site 1006007001195 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1006007001196 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1006007001197 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 1006007001198 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1006007001199 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 1006007001200 active site 1006007001201 substrate-binding site [chemical binding]; other site 1006007001202 metal-binding site [ion binding] 1006007001203 ATP binding site [chemical binding]; other site 1006007001204 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1006007001205 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1006007001206 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1006007001207 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1006007001208 potential frameshift: common BLAST hit: gi|295706944|ref|YP_003600019.1| glycosyl transferase domain-containing protein 1006007001209 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1006007001210 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 1006007001211 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 1006007001212 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1006007001213 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; cl00474 1006007001214 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1006007001215 active site 1006007001216 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1006007001217 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 1006007001218 trimer interface [polypeptide binding]; other site 1006007001219 putative metal binding site [ion binding]; other site 1006007001220 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1006007001221 Plasmodium subtelomeric family (PST-A); Region: PST-A; TIGR01607 1006007001222 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 1006007001223 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1006007001224 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 1006007001225 S-adenosylmethionine binding site [chemical binding]; other site 1006007001226 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1006007001227 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 1006007001228 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 1006007001229 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007001230 putative substrate translocation pore; other site 1006007001231 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1006007001232 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1006007001233 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1006007001234 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1006007001235 HIGH motif; other site 1006007001236 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1006007001237 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1006007001238 active site 1006007001239 KMSKS motif; other site 1006007001240 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1006007001241 tRNA binding surface [nucleotide binding]; other site 1006007001242 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 1006007001243 active site residue [active] 1006007001244 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 1006007001245 HI0933-like protein; Region: HI0933_like; pfam03486 1006007001246 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1006007001247 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1006007001248 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1006007001249 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1006007001250 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 1006007001251 RNA binding surface [nucleotide binding]; other site 1006007001252 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1006007001253 active site 1006007001254 uracil binding [chemical binding]; other site 1006007001255 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1006007001256 dipeptidase PepV; Reviewed; Region: PRK07318 1006007001257 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1006007001258 active site 1006007001259 metal binding site [ion binding]; metal-binding site 1006007001260 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1006007001261 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 1006007001262 dimer interface [polypeptide binding]; other site 1006007001263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007001264 catalytic residue [active] 1006007001265 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1006007001266 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1006007001267 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1006007001268 pullulanase, type I; Region: pulA_typeI; TIGR02104 1006007001269 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 1006007001270 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 1006007001271 Ca binding site [ion binding]; other site 1006007001272 active site 1006007001273 catalytic site [active] 1006007001274 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 1006007001275 Phosphotransferase enzyme family; Region: APH; pfam01636 1006007001276 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; cd05120 1006007001277 active site 1006007001278 substrate binding site [chemical binding]; other site 1006007001279 ATP binding site [chemical binding]; other site 1006007001280 YtzH-like protein; Region: YtzH; pfam14165 1006007001281 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 1006007001282 S-adenosylmethionine binding site [chemical binding]; other site 1006007001283 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1006007001284 Predicted small secreted protein [Function unknown]; Region: COG5584 1006007001285 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1006007001286 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1006007001287 oligomer interface [polypeptide binding]; other site 1006007001288 active site 1006007001289 metal binding site [ion binding]; metal-binding site 1006007001290 NTPase; Reviewed; Region: PRK03114 1006007001291 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 1006007001292 catalytic residues [active] 1006007001293 hypothetical protein; Provisional; Region: PRK13668 1006007001294 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 1006007001295 putative tRNA-binding site [nucleotide binding]; other site 1006007001296 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1006007001297 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1006007001298 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1006007001299 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1006007001300 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1006007001301 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1006007001302 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1006007001303 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1006007001304 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1006007001305 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 1006007001306 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 1006007001307 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 1006007001308 Chorismate mutase type II; Region: CM_2; cl00693 1006007001309 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1006007001310 catabolite control protein A; Region: ccpA; TIGR01481 1006007001311 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007001312 DNA binding site [nucleotide binding] 1006007001313 domain linker motif; other site 1006007001314 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 1006007001315 dimerization interface [polypeptide binding]; other site 1006007001316 effector binding site; other site 1006007001317 flagellar motor protein MotP; Reviewed; Region: PRK06926 1006007001318 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1006007001319 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1006007001320 ligand binding site [chemical binding]; other site 1006007001321 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1006007001322 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 1006007001323 active site 1006007001324 Zn binding site [ion binding]; other site 1006007001325 FOG: CBS domain [General function prediction only]; Region: COG0517 1006007001326 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 1006007001327 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 1006007001328 acetyl-CoA synthetase; Provisional; Region: PRK04319 1006007001329 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1006007001330 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 1006007001331 active site 1006007001332 acyl-activating enzyme (AAE) consensus motif; other site 1006007001333 putative CoA binding site [chemical binding]; other site 1006007001334 AMP binding site [chemical binding]; other site 1006007001335 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1006007001336 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 1006007001337 active site 1006007001338 HIGH motif; other site 1006007001339 dimer interface [polypeptide binding]; other site 1006007001340 KMSKS motif; other site 1006007001341 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 1006007001342 RNA binding surface [nucleotide binding]; other site 1006007001343 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1006007001344 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1006007001345 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 1006007001346 RNA binding surface [nucleotide binding]; other site 1006007001347 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1006007001348 GAF domain; Region: GAF_2; pfam13185 1006007001349 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007001350 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007001351 histidinol-phosphatase; Reviewed; Region: PRK08123 1006007001352 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 1006007001353 active site 1006007001354 dimer interface [polypeptide binding]; other site 1006007001355 septation ring formation regulator EzrA; Provisional; Region: PRK04778 1006007001356 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1006007001357 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1006007001358 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1006007001359 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1006007001360 catalytic residue [active] 1006007001361 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1006007001362 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1006007001363 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 1006007001364 Ligand Binding Site [chemical binding]; other site 1006007001365 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1006007001366 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1006007001367 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1006007001368 active site 1006007001369 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 1006007001370 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1006007001371 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1006007001372 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1006007001373 tandem repeat interface [polypeptide binding]; other site 1006007001374 oligomer interface [polypeptide binding]; other site 1006007001375 active site residues [active] 1006007001376 RDD family; Region: RDD; pfam06271 1006007001377 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 1006007001378 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 1006007001379 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 1006007001380 dimer interface [polypeptide binding]; other site 1006007001381 catalytic triad [active] 1006007001382 peroxidatic and resolving cysteines [active] 1006007001383 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1006007001384 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 1006007001385 S-adenosylmethionine binding site [chemical binding]; other site 1006007001386 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1006007001387 propionate/acetate kinase; Provisional; Region: PRK12379 1006007001388 EcsC protein family; Region: EcsC; pfam12787 1006007001389 argininosuccinate synthase; Provisional; Region: PRK13820 1006007001390 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 1006007001391 ANP binding site [chemical binding]; other site 1006007001392 Substrate Binding Site II [chemical binding]; other site 1006007001393 Substrate Binding Site I [chemical binding]; other site 1006007001394 argininosuccinate lyase; Provisional; Region: PRK00855 1006007001395 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1006007001396 active sites [active] 1006007001397 tetramer interface [polypeptide binding]; other site 1006007001398 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1006007001399 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1006007001400 hexamer interface [polypeptide binding]; other site 1006007001401 ligand binding site [chemical binding]; other site 1006007001402 putative active site [active] 1006007001403 NAD(P) binding site [chemical binding]; other site 1006007001404 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1006007001405 metal-dependent hydrolase; Provisional; Region: PRK00685 1006007001406 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1006007001407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007001408 DNA-binding site [nucleotide binding]; DNA binding site 1006007001409 DRTGG domain; Region: DRTGG; pfam07085 1006007001410 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 1006007001411 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1006007001412 active site 2 [active] 1006007001413 active site 1 [active] 1006007001414 YtpI-like protein; Region: YtpI; pfam14007 1006007001415 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1006007001416 DHH family; Region: DHH; pfam01368 1006007001417 DHHA1 domain; Region: DHHA1; pfam02272 1006007001418 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 1006007001419 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06920 1006007001420 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1006007001421 active site 1006007001422 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 1006007001423 generic binding surface I; other site 1006007001424 generic binding surface II; other site 1006007001425 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1006007001426 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1006007001427 putative NAD(P) binding site [chemical binding]; other site 1006007001428 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1006007001429 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007001430 DNA-binding site [nucleotide binding]; DNA binding site 1006007001431 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1006007001432 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1006007001433 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1006007001434 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1006007001435 pyruvate kinase; Provisional; Region: PRK06354 1006007001436 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 1006007001437 domain interfaces; other site 1006007001438 active site 1006007001439 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1006007001440 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1006007001441 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1006007001442 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1006007001443 Protein of unknown function (DUF441); Region: DUF441; pfam04284 1006007001444 Bacillus subtilis (Bs) citrate synthase (CS)-II_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). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 1006007001445 dimer interface [polypeptide binding]; other site 1006007001446 Citrate synthase; Region: Citrate_synt; pfam00285 1006007001447 active site 1006007001448 citrylCoA binding site [chemical binding]; other site 1006007001449 oxalacetate/citrate binding site [chemical binding]; other site 1006007001450 coenzyme A binding site [chemical binding]; other site 1006007001451 catalytic triad [active] 1006007001452 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1006007001453 isocitrate dehydrogenase; Validated; Region: PRK06451 1006007001454 malate dehydrogenase; Reviewed; Region: PRK06223 1006007001455 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1006007001456 NAD(P) binding site [chemical binding]; other site 1006007001457 dimer interface [polypeptide binding]; other site 1006007001458 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1006007001459 substrate binding site [chemical binding]; other site 1006007001460 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1006007001461 active site 2 [active] 1006007001462 active site 1 [active] 1006007001463 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007001464 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 1006007001465 active site 1006007001466 phosphorylation site [posttranslational modification] 1006007001467 intermolecular recognition site; other site 1006007001468 dimerization interface [polypeptide binding]; other site 1006007001469 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 1006007001470 DNA binding site [nucleotide binding] 1006007001471 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 1006007001472 dimerization interface [polypeptide binding]; other site 1006007001473 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1006007001474 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 1006007001475 putative active site [active] 1006007001476 heme pocket [chemical binding]; other site 1006007001477 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 1006007001478 dimer interface [polypeptide binding]; other site 1006007001479 phosphorylation site [posttranslational modification] 1006007001480 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 1006007001481 ATP binding site [chemical binding]; other site 1006007001482 Mg2+ binding site [ion binding]; other site 1006007001483 G-X-G motif; other site 1006007001484 DNA polymerase I; Provisional; Region: PRK05755 1006007001485 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1006007001486 active site 1006007001487 metal binding site 1 [ion binding]; metal-binding site 1006007001488 putative 5' ssDNA interaction site; other site 1006007001489 metal binding site 3; metal-binding site 1006007001490 metal binding site 2 [ion binding]; metal-binding site 1006007001491 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1006007001492 putative DNA binding site [nucleotide binding]; other site 1006007001493 putative metal binding site [ion binding]; other site 1006007001494 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 1006007001495 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1006007001496 active site 1006007001497 DNA binding site [nucleotide binding] 1006007001498 catalytic site [active] 1006007001499 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1006007001500 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1006007001501 DNA binding site [nucleotide binding] 1006007001502 turnover-facilitating residue; other site 1006007001503 intercalation triad [nucleotide binding]; other site 1006007001504 8OG recognition residue [nucleotide binding]; other site 1006007001505 putative reading head residues; other site 1006007001506 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1006007001507 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1006007001508 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 1006007001509 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1006007001510 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 1006007001511 CoA-binding site [chemical binding]; other site 1006007001512 ATP-binding [chemical binding]; other site 1006007001513 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 1006007001514 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1006007001515 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1006007001516 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 1006007001517 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1006007001518 ATP cone domain; Region: ATP-cone; pfam03477 1006007001519 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1006007001520 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1006007001521 primosomal protein DnaI; Reviewed; Region: PRK08939 1006007001522 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1006007001523 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 1006007001524 Walker A motif; other site 1006007001525 ATP binding site [chemical binding]; other site 1006007001526 Walker B motif; other site 1006007001527 YtxC-like family; Region: YtxC; pfam08812 1006007001528 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1006007001529 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 1006007001530 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1006007001531 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 1006007001532 active site 1006007001533 dimer interface [polypeptide binding]; other site 1006007001534 motif 1; other site 1006007001535 motif 2; other site 1006007001536 motif 3; other site 1006007001537 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 1006007001538 anticodon binding site; other site 1006007001539 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1006007001540 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1006007001541 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1006007001542 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1006007001543 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1006007001544 23S rRNA binding site [nucleotide binding]; other site 1006007001545 L21 binding site [polypeptide binding]; other site 1006007001546 L13 binding site [polypeptide binding]; other site 1006007001547 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1006007001548 dUTPase; Region: dUTPase_2; pfam08761 1006007001549 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 1006007001550 active site 1006007001551 homodimer interface [polypeptide binding]; other site 1006007001552 metal binding site [ion binding]; metal-binding site 1006007001553 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1006007001554 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1006007001555 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1006007001556 oligomer interface [polypeptide binding]; other site 1006007001557 active site 1006007001558 metal binding site [ion binding]; metal-binding site 1006007001559 small acid-soluble spore protein SspI; Provisional; Region: PRK02955 1006007001560 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1006007001561 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1006007001562 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1006007001563 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1006007001564 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1006007001565 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 1006007001566 dimer interface [polypeptide binding]; other site 1006007001567 motif 1; other site 1006007001568 active site 1006007001569 motif 2; other site 1006007001570 motif 3; other site 1006007001571 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1006007001572 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 1006007001573 putative tRNA-binding site [nucleotide binding]; other site 1006007001574 B3/4 domain; Region: B3_4; pfam03483 1006007001575 tRNA synthetase B5 domain; Region: B5; smart00874 1006007001576 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 1006007001577 dimer interface [polypeptide binding]; other site 1006007001578 motif 1; other site 1006007001579 motif 3; other site 1006007001580 motif 2; other site 1006007001581 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1006007001582 ribonuclease HIII; Provisional; Region: PRK00996 1006007001583 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1006007001584 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1006007001585 RNA/DNA hybrid binding site [nucleotide binding]; other site 1006007001586 active site 1006007001587 cell division protein ZapA; Provisional; Region: PRK14126 1006007001588 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1006007001589 Colicin V production protein; Region: Colicin_V; pfam02674 1006007001590 hypothetical protein; Provisional; Region: PRK08609 1006007001591 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 1006007001592 active site 1006007001593 primer binding site [nucleotide binding]; other site 1006007001594 NTP binding site [chemical binding]; other site 1006007001595 metal binding triad [ion binding]; metal-binding site 1006007001596 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 1006007001597 active site 1006007001598 MutS domain III; Region: MutS_III; pfam05192 1006007001599 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1006007001600 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1006007001601 Walker A/P-loop; other site 1006007001602 ATP binding site [chemical binding]; other site 1006007001603 Q-loop/lid; other site 1006007001604 ABC transporter signature motif; other site 1006007001605 Walker B; other site 1006007001606 D-loop; other site 1006007001607 H-loop/switch region; other site 1006007001608 Smr domain; Region: Smr; pfam01713 1006007001609 Predicted membrane protein [Function unknown]; Region: COG3766 1006007001610 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1006007001611 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1006007001612 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 1006007001613 substrate binding site [chemical binding]; other site 1006007001614 THF binding site; other site 1006007001615 zinc-binding site [ion binding]; other site 1006007001616 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 1006007001617 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1006007001618 acyl-activating enzyme (AAE) consensus motif; other site 1006007001619 putative AMP binding site [chemical binding]; other site 1006007001620 putative active site [active] 1006007001621 putative CoA binding site [chemical binding]; other site 1006007001622 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007001623 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007001624 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1006007001625 enoyl-CoA hydratase; Provisional; Region: PRK07658 1006007001626 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 1006007001627 substrate binding site [chemical binding]; other site 1006007001628 oxyanion hole (OAH) forming residues; other site 1006007001629 trimer interface [polypeptide binding]; other site 1006007001630 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1006007001631 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1006007001632 Ligand binding site [chemical binding]; other site 1006007001633 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1006007001634 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1006007001635 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1006007001636 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1006007001637 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 1006007001638 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1006007001639 catalytic residues [active] 1006007001640 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1006007001641 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1006007001642 GIY-YIG motif/motif A; other site 1006007001643 active site 1006007001644 catalytic site [active] 1006007001645 putative DNA binding site [nucleotide binding]; other site 1006007001646 metal binding site [ion binding]; metal-binding site 1006007001647 UvrB/uvrC motif; Region: UVR; pfam02151 1006007001648 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1006007001649 aspartate kinase; Reviewed; Region: PRK06635 1006007001650 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1006007001651 putative nucleotide binding site [chemical binding]; other site 1006007001652 putative catalytic residues [active] 1006007001653 putative Mg ion binding site [ion binding]; other site 1006007001654 putative aspartate binding site [chemical binding]; other site 1006007001655 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1006007001656 putative allosteric regulatory site; other site 1006007001657 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1006007001658 putative allosteric regulatory residue; other site 1006007001659 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 1006007001660 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 1006007001661 putative Iron-sulfur protein interface [polypeptide binding]; other site 1006007001662 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 1006007001663 proximal heme binding site [chemical binding]; other site 1006007001664 distal heme binding site [chemical binding]; other site 1006007001665 putative dimer interface [polypeptide binding]; other site 1006007001666 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 1006007001667 L-aspartate oxidase; Provisional; Region: PRK06175 1006007001668 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1006007001669 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 1006007001670 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1006007001671 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 1006007001672 active site 1006007001673 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1006007001674 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 1006007001675 DNA binding residues [nucleotide binding] 1006007001676 dimerization interface [polypeptide binding]; other site 1006007001677 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 1006007001678 TrkA-C domain; Region: TrkA_C; pfam02080 1006007001679 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1006007001680 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1006007001681 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1006007001682 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1006007001683 Walker A/P-loop; other site 1006007001684 ATP binding site [chemical binding]; other site 1006007001685 Q-loop/lid; other site 1006007001686 ABC transporter signature motif; other site 1006007001687 Walker B; other site 1006007001688 D-loop; other site 1006007001689 H-loop/switch region; other site 1006007001690 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1006007001691 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 1006007001692 substrate binding pocket [chemical binding]; other site 1006007001693 membrane-bound complex binding site; other site 1006007001694 hinge residues; other site 1006007001695 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1006007001696 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 1006007001697 dimer interface [polypeptide binding]; other site 1006007001698 conserved gate region; other site 1006007001699 putative PBP binding loops; other site 1006007001700 ABC-ATPase subunit interface; other site 1006007001701 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 1006007001702 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1006007001703 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1006007001704 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 1006007001705 active site 1006007001706 dimer interface [polypeptide binding]; other site 1006007001707 non-prolyl cis peptide bond; other site 1006007001708 insertion regions; other site 1006007001709 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 1006007001710 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1006007001711 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1006007001712 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1006007001713 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1006007001714 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1006007001715 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1006007001716 pentamer interface [polypeptide binding]; other site 1006007001717 dodecaamer interface [polypeptide binding]; other site 1006007001718 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 1006007001719 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007001720 MarR family; Region: MarR; pfam01047 1006007001721 glutamate racemase; Provisional; Region: PRK00865 1006007001722 Spore germination protein [General function prediction only]; Region: COG5401 1006007001723 Sporulation and spore germination; Region: Germane; pfam10646 1006007001724 Sporulation and spore germination; Region: Germane; pfam10646 1006007001725 ribonuclease PH; Reviewed; Region: rph; PRK00173 1006007001726 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1006007001727 hexamer interface [polypeptide binding]; other site 1006007001728 active site 1006007001729 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 1006007001730 active site 1006007001731 dimerization interface [polypeptide binding]; other site 1006007001732 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1006007001733 active site 1006007001734 metal binding site [ion binding]; metal-binding site 1006007001735 homotetramer interface [polypeptide binding]; other site 1006007001736 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 1006007001737 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1006007001738 PYR/PP interface [polypeptide binding]; other site 1006007001739 dimer interface [polypeptide binding]; other site 1006007001740 TPP binding site [chemical binding]; other site 1006007001741 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1006007001742 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 1006007001743 TPP-binding site [chemical binding]; other site 1006007001744 dimer interface [polypeptide binding]; other site 1006007001745 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1006007001746 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1006007001747 putative valine binding site [chemical binding]; other site 1006007001748 dimer interface [polypeptide binding]; other site 1006007001749 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1006007001750 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1006007001751 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1006007001752 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1006007001753 2-isopropylmalate synthase; Validated; Region: PRK00915 1006007001754 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1006007001755 active site 1006007001756 catalytic residues [active] 1006007001757 metal binding site [ion binding]; metal-binding site 1006007001758 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1006007001759 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1006007001760 tartrate dehydrogenase; Region: TTC; TIGR02089 1006007001761 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1006007001762 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1006007001763 substrate binding site [chemical binding]; other site 1006007001764 ligand binding site [chemical binding]; other site 1006007001765 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1006007001766 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 1006007001767 substrate binding site [chemical binding]; other site 1006007001768 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 1006007001769 binding surface 1006007001770 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1006007001771 TPR motif; other site 1006007001772 trigger factor; Provisional; Region: tig; PRK01490 1006007001773 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1006007001774 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1006007001775 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1006007001776 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1006007001777 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 1006007001778 Walker A motif; other site 1006007001779 ATP binding site [chemical binding]; other site 1006007001780 Walker B motif; other site 1006007001781 arginine finger; other site 1006007001782 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1006007001783 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 1006007001784 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 1006007001785 Walker A motif; other site 1006007001786 ATP binding site [chemical binding]; other site 1006007001787 Walker B motif; other site 1006007001788 arginine finger; other site 1006007001789 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1006007001790 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1006007001791 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1006007001792 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1006007001793 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 1006007001794 Walker A motif; other site 1006007001795 ATP binding site [chemical binding]; other site 1006007001796 Walker B motif; other site 1006007001797 arginine finger; other site 1006007001798 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1006007001799 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1006007001800 G1 box; other site 1006007001801 GTP/Mg2+ binding site [chemical binding]; other site 1006007001802 Switch I region; other site 1006007001803 G2 box; other site 1006007001804 G3 box; other site 1006007001805 Switch II region; other site 1006007001806 G4 box; other site 1006007001807 G5 box; other site 1006007001808 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1006007001809 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1006007001810 tRNA; other site 1006007001811 putative tRNA binding site [nucleotide binding]; other site 1006007001812 putative NADP binding site [chemical binding]; other site 1006007001813 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1006007001814 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1006007001815 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1006007001816 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 1006007001817 domain interfaces; other site 1006007001818 active site 1006007001819 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1006007001820 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 1006007001821 active site 1006007001822 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 1006007001823 dimer interface [polypeptide binding]; other site 1006007001824 active site 1006007001825 Schiff base residues; other site 1006007001826 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1006007001827 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 1006007001828 inhibitor-cofactor binding pocket; inhibition site 1006007001829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007001830 catalytic residue [active] 1006007001831 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007001832 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 1006007001833 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1006007001834 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1006007001835 active site 1006007001836 HIGH motif; other site 1006007001837 nucleotide binding site [chemical binding]; other site 1006007001838 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1006007001839 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1006007001840 active site 1006007001841 KMSKS motif; other site 1006007001842 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1006007001843 tRNA binding surface [nucleotide binding]; other site 1006007001844 anticodon binding site; other site 1006007001845 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1006007001846 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1006007001847 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1006007001848 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1006007001849 Predicted membrane protein [Function unknown]; Region: COG2322 1006007001850 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 1006007001851 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1006007001852 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1006007001853 Sporulation related domain; Region: SPOR; cl10051 1006007001854 Maf-like protein; Region: Maf; pfam02545 1006007001855 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 1006007001856 active site 1006007001857 dimer interface [polypeptide binding]; other site 1006007001858 hypothetical protein; Reviewed; Region: PRK00024 1006007001859 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1006007001860 MPN+ (JAMM) motif; other site 1006007001861 Zinc-binding site [ion binding]; other site 1006007001862 rod shape-determining protein MreB; Provisional; Region: PRK13927 1006007001863 MreB and similar proteins; Region: MreB_like; cd10225 1006007001864 nucleotide binding site [chemical binding]; other site 1006007001865 Mg binding site [ion binding]; other site 1006007001866 putative protofilament interaction site [polypeptide binding]; other site 1006007001867 RodZ interaction site [polypeptide binding]; other site 1006007001868 rod shape-determining protein MreC; Provisional; Region: PRK13922 1006007001869 rod shape-determining protein MreC; Region: MreC; pfam04085 1006007001870 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1006007001871 septum formation inhibitor; Reviewed; Region: minC; PRK00513 1006007001872 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1006007001873 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1006007001874 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 1006007001875 Switch I; other site 1006007001876 Switch II; other site 1006007001877 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1006007001878 Peptidase family M23; Region: Peptidase_M23; pfam01551 1006007001879 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 1006007001880 Peptidase family M50; Region: Peptidase_M50; pfam02163 1006007001881 active site 1006007001882 putative substrate binding region [chemical binding]; other site 1006007001883 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1006007001884 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 1006007001885 homodimer interface [polypeptide binding]; other site 1006007001886 oligonucleotide binding site [chemical binding]; other site 1006007001887 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1006007001888 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1006007001889 hypothetical protein; Provisional; Region: PRK14553 1006007001890 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1006007001891 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1006007001892 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1006007001893 GTP1/OBG; Region: GTP1_OBG; pfam01018 1006007001894 Obg GTPase; Region: Obg; cd01898 1006007001895 G1 box; other site 1006007001896 GTP/Mg2+ binding site [chemical binding]; other site 1006007001897 Switch I region; other site 1006007001898 G2 box; other site 1006007001899 G3 box; other site 1006007001900 Switch II region; other site 1006007001901 G4 box; other site 1006007001902 G5 box; other site 1006007001903 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1006007001904 hypothetical protein; Provisional; Region: PRK04435 1006007001905 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 1006007001906 prephenate dehydratase; Provisional; Region: PRK11898 1006007001907 Prephenate dehydratase; Region: PDT; pfam00800 1006007001908 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 1006007001909 putative L-Phe binding site [chemical binding]; other site 1006007001910 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1006007001911 HTH domain; Region: HTH_11; pfam08279 1006007001912 3H domain; Region: 3H; pfam02829 1006007001913 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 1006007001914 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1006007001915 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1006007001916 catalytic residue [active] 1006007001917 L-aspartate oxidase; Provisional; Region: PRK08071 1006007001918 L-aspartate oxidase; Provisional; Region: PRK06175 1006007001919 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1006007001920 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007001921 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 1006007001922 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 1006007001923 Heat induced stress protein YflT; Region: YflT; pfam11181 1006007001924 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 1006007001925 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 1006007001926 BofC C-terminal domain; Region: BofC_C; pfam08955 1006007001927 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1006007001928 RuvA N terminal domain; Region: RuvA_N; pfam01330 1006007001929 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1006007001930 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1006007001931 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1006007001932 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1006007001933 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 1006007001934 Predicted membrane protein [Function unknown]; Region: COG2323 1006007001935 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1006007001936 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1006007001937 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 1006007001938 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1006007001939 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1006007001940 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1006007001941 Protein export membrane protein; Region: SecD_SecF; pfam02355 1006007001942 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1006007001943 DHH family; Region: DHH; pfam01368 1006007001944 DHHA1 domain; Region: DHHA1; pfam02272 1006007001945 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 1006007001946 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1006007001947 active site 1006007001948 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1006007001949 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1006007001950 Zn2+ binding site [ion binding]; other site 1006007001951 Mg2+ binding site [ion binding]; other site 1006007001952 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1006007001953 synthetase active site [active] 1006007001954 NTP binding site [chemical binding]; other site 1006007001955 metal binding site [ion binding]; metal-binding site 1006007001956 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 1006007001957 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1006007001958 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 1006007001959 putative active site [active] 1006007001960 dimerization interface [polypeptide binding]; other site 1006007001961 putative tRNAtyr binding site [nucleotide binding]; other site 1006007001962 Bacterial SH3 domain; Region: SH3_3; pfam08239 1006007001963 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1006007001964 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 1006007001965 active site 1006007001966 metal binding site [ion binding]; metal-binding site 1006007001967 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1006007001968 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 1006007001969 dimer interface [polypeptide binding]; other site 1006007001970 motif 1; other site 1006007001971 active site 1006007001972 motif 2; other site 1006007001973 motif 3; other site 1006007001974 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 1006007001975 anticodon binding site; other site 1006007001976 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1006007001977 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 1006007001978 dimer interface [polypeptide binding]; other site 1006007001979 anticodon binding site; other site 1006007001980 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 1006007001981 homodimer interface [polypeptide binding]; other site 1006007001982 motif 1; other site 1006007001983 active site 1006007001984 motif 2; other site 1006007001985 GAD domain; Region: GAD; pfam02938 1006007001986 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 1006007001987 motif 3; other site 1006007001988 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1006007001989 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 1006007001990 putative ATP binding site [chemical binding]; other site 1006007001991 putative substrate interface [chemical binding]; other site 1006007001992 PBP superfamily domain; Region: PBP_like_2; cl17296 1006007001993 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1006007001994 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 1006007001995 dimer interface [polypeptide binding]; other site 1006007001996 conserved gate region; other site 1006007001997 putative PBP binding loops; other site 1006007001998 ABC-ATPase subunit interface; other site 1006007001999 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1006007002000 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 1006007002001 dimer interface [polypeptide binding]; other site 1006007002002 conserved gate region; other site 1006007002003 putative PBP binding loops; other site 1006007002004 ABC-ATPase subunit interface; other site 1006007002005 recombination factor protein RarA; Reviewed; Region: PRK13342 1006007002006 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 1006007002007 Walker A motif; other site 1006007002008 ATP binding site [chemical binding]; other site 1006007002009 Walker B motif; other site 1006007002010 arginine finger; other site 1006007002011 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1006007002012 Predicted transcriptional regulator [Transcription]; Region: COG1959 1006007002013 Transcriptional regulator; Region: Rrf2; pfam02082 1006007002014 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1006007002015 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1006007002016 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1006007002017 catalytic residue [active] 1006007002018 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1006007002019 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 1006007002020 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 1006007002021 binding surface 1006007002022 TPR motif; other site 1006007002023 TPR repeat; Region: TPR_11; pfam13414 1006007002024 TPR repeat; Region: TPR_11; pfam13414 1006007002025 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 1006007002026 binding surface 1006007002027 TPR motif; other site 1006007002028 TPR repeat; Region: TPR_11; pfam13414 1006007002029 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1006007002030 AAA domain; Region: AAA_30; pfam13604 1006007002031 Family description; Region: UvrD_C_2; pfam13538 1006007002032 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1006007002033 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1006007002034 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1006007002035 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 1006007002036 motif 1; other site 1006007002037 active site 1006007002038 motif 2; other site 1006007002039 motif 3; other site 1006007002040 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1006007002041 DHHA1 domain; Region: DHHA1; pfam02272 1006007002042 hypothetical protein; Provisional; Region: PRK05473 1006007002043 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1006007002044 hypothetical protein; Provisional; Region: PRK13678 1006007002045 YceG-like family; Region: YceG; pfam02618 1006007002046 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1006007002047 dimerization interface [polypeptide binding]; other site 1006007002048 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1006007002049 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 1006007002050 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1006007002051 Peptidase family U32; Region: Peptidase_U32; pfam01136 1006007002052 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1006007002053 Peptidase family U32; Region: Peptidase_U32; pfam01136 1006007002054 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1006007002055 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 1006007002056 ATP-binding site [chemical binding]; other site 1006007002057 Sugar specificity; other site 1006007002058 Pyrimidine base specificity; other site 1006007002059 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1006007002060 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1006007002061 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1006007002062 Isochorismatase family; Region: Isochorismatase; pfam00857 1006007002063 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 1006007002064 catalytic triad [active] 1006007002065 conserved cis-peptide bond; other site 1006007002066 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1006007002067 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1006007002068 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1006007002069 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 1006007002070 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 1006007002071 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 1006007002072 YrhC-like protein; Region: YrhC; pfam14143 1006007002073 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; pfam09501 1006007002074 sporulation sigma factor SigK; Reviewed; Region: PRK05803 1006007002075 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007002076 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 1006007002077 DNA binding residues [nucleotide binding] 1006007002078 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1006007002079 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1006007002080 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1006007002081 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 1006007002082 Sporulation inhibitor A; Region: Sda; pfam08970 1006007002083 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1006007002084 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 1006007002085 active site 1006007002086 motif I; other site 1006007002087 motif II; other site 1006007002088 GTPase YqeH; Provisional; Region: PRK13796 1006007002089 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1006007002090 GTP/Mg2+ binding site [chemical binding]; other site 1006007002091 G4 box; other site 1006007002092 G5 box; other site 1006007002093 G1 box; other site 1006007002094 Switch I region; other site 1006007002095 G2 box; other site 1006007002096 G3 box; other site 1006007002097 Switch II region; other site 1006007002098 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1006007002099 Zn2+ binding site [ion binding]; other site 1006007002100 Mg2+ binding site [ion binding]; other site 1006007002101 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1006007002102 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1006007002103 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 1006007002104 S-adenosylmethionine binding site [chemical binding]; other site 1006007002105 late competence protein ComER; Validated; Region: PRK07680 1006007002106 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1006007002107 SLBB domain; Region: SLBB; pfam10531 1006007002108 comEA protein; Region: comE; TIGR01259 1006007002109 Helix-hairpin-helix motif; Region: HHH; pfam00633 1006007002110 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 1006007002111 catalytic motif [active] 1006007002112 Zn binding site [ion binding]; other site 1006007002113 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1006007002114 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1006007002115 Competence protein; Region: Competence; pfam03772 1006007002116 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1006007002117 YqzM-like protein; Region: YqzM; pfam14141 1006007002118 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1006007002119 DNA polymerase III, delta subunit; Region: holA; TIGR01128 1006007002120 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1006007002121 germination protease; Provisional; Region: PRK02858 1006007002122 Protein of unknown function (DUF3679); Region: DUF3679; pfam12438 1006007002123 GTP-binding protein LepA; Provisional; Region: PRK05433 1006007002124 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1006007002125 G1 box; other site 1006007002126 putative GEF interaction site [polypeptide binding]; other site 1006007002127 GTP/Mg2+ binding site [chemical binding]; other site 1006007002128 Switch I region; other site 1006007002129 G2 box; other site 1006007002130 G3 box; other site 1006007002131 Switch II region; other site 1006007002132 G4 box; other site 1006007002133 G5 box; other site 1006007002134 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 1006007002135 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 1006007002136 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1006007002137 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1006007002138 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 1006007002139 FeS/SAM binding site; other site 1006007002140 HemN C-terminal domain; Region: HemN_C; pfam06969 1006007002141 HrcA protein C terminal domain; Region: HrcA; pfam01628 1006007002142 GrpE; Region: GrpE; pfam01025 1006007002143 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 1006007002144 dimer interface [polypeptide binding]; other site 1006007002145 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1006007002146 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1006007002147 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1006007002148 nucleotide binding site [chemical binding]; other site 1006007002149 NEF interaction site [polypeptide binding]; other site 1006007002150 SBD interface [polypeptide binding]; other site 1006007002151 chaperone protein DnaJ; Provisional; Region: PRK14280 1006007002152 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 1006007002153 HSP70 interaction site [polypeptide binding]; other site 1006007002154 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1006007002155 substrate binding site [polypeptide binding]; other site 1006007002156 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1006007002157 Zn binding sites [ion binding]; other site 1006007002158 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1006007002159 dimer interface [polypeptide binding]; other site 1006007002160 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1006007002161 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 1006007002162 S-adenosylmethionine binding site [chemical binding]; other site 1006007002163 RNA methyltransferase, RsmE family; Region: TIGR00046 1006007002164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1006007002165 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1006007002166 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1006007002167 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 1006007002168 FeS/SAM binding site; other site 1006007002169 TRAM domain; Region: TRAM; cl01282 1006007002170 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1006007002171 Yqey-like protein; Region: YqeY; pfam09424 1006007002172 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1006007002173 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 1006007002174 dimer interface [polypeptide binding]; other site 1006007002175 active site residues [active] 1006007002176 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 1006007002177 hypothetical protein; Provisional; Region: PRK13665 1006007002178 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 1006007002179 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 1006007002180 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 1006007002181 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1006007002182 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 1006007002183 PhoH-like protein; Region: PhoH; pfam02562 1006007002184 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1006007002185 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1006007002186 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1006007002187 Zn2+ binding site [ion binding]; other site 1006007002188 Mg2+ binding site [ion binding]; other site 1006007002189 metal-binding heat shock protein; Provisional; Region: PRK00016 1006007002190 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1006007002191 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 1006007002192 active site 1006007002193 catalytic motif [active] 1006007002194 Zn binding site [ion binding]; other site 1006007002195 GTPase Era; Reviewed; Region: era; PRK00089 1006007002196 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1006007002197 G1 box; other site 1006007002198 GTP/Mg2+ binding site [chemical binding]; other site 1006007002199 Switch I region; other site 1006007002200 G2 box; other site 1006007002201 Switch II region; other site 1006007002202 G3 box; other site 1006007002203 G4 box; other site 1006007002204 G5 box; other site 1006007002205 KH domain; Region: KH_2; pfam07650 1006007002206 YqzL-like protein; Region: YqzL; pfam14006 1006007002207 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1006007002208 Recombination protein O N terminal; Region: RecO_N; pfam11967 1006007002209 Recombination protein O C terminal; Region: RecO_C; pfam02565 1006007002210 HTH domain; Region: HTH_11; pfam08279 1006007002211 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 1006007002212 FOG: CBS domain [General function prediction only]; Region: COG0517 1006007002213 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1006007002214 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1006007002215 DNA primase; Validated; Region: dnaG; PRK05667 1006007002216 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1006007002217 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1006007002218 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 1006007002219 active site 1006007002220 metal binding site [ion binding]; metal-binding site 1006007002221 interdomain interaction site; other site 1006007002222 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1006007002223 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1006007002224 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1006007002225 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1006007002226 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007002227 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1006007002228 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 1006007002229 DNA binding residues [nucleotide binding] 1006007002230 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1006007002231 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1006007002232 active site 1006007002233 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1006007002234 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1006007002235 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1006007002236 Family of unknown function (DUF633); Region: DUF633; pfam04816 1006007002237 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1006007002238 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1006007002239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1006007002240 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1006007002241 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1006007002242 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1006007002243 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1006007002244 YqfQ-like protein; Region: YqfQ; pfam14181 1006007002245 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 1006007002246 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1006007002247 ATP binding site [chemical binding]; other site 1006007002248 Mg++ binding site [ion binding]; other site 1006007002249 motif III; other site 1006007002250 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 1006007002251 nucleotide binding region [chemical binding]; other site 1006007002252 ATP-binding site [chemical binding]; other site 1006007002253 endonuclease IV; Provisional; Region: PRK01060 1006007002254 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 1006007002255 AP (apurinic/apyrimidinic) site pocket; other site 1006007002256 DNA interaction; other site 1006007002257 Metal-binding active site; metal-binding site 1006007002258 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 1006007002259 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1006007002260 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1006007002261 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1006007002262 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 1006007002263 ABC-ATPase subunit interface; other site 1006007002264 dimer interface [polypeptide binding]; other site 1006007002265 putative PBP binding regions; other site 1006007002266 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1006007002267 metal binding site 2 [ion binding]; metal-binding site 1006007002268 putative DNA binding helix; other site 1006007002269 metal binding site 1 [ion binding]; metal-binding site 1006007002270 dimer interface [polypeptide binding]; other site 1006007002271 structural Zn2+ binding site [ion binding]; other site 1006007002272 Uncharacterized conserved protein [Function unknown]; Region: COG5663 1006007002273 GcpE protein; Region: GcpE; pfam04551 1006007002274 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1006007002275 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1006007002276 potential frameshift: common BLAST hit: gi|295706610|ref|YP_003599685.1| major facilitator family transporter 1006007002277 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 1006007002278 putative substrate translocation pore; other site 1006007002279 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; cl17904 1006007002280 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 1006007002281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2839 1006007002282 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1006007002283 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1006007002284 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1006007002285 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 1006007002286 putative substrate translocation pore; other site 1006007002287 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007002288 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1006007002289 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1006007002290 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1006007002291 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1006007002292 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 1006007002293 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1006007002294 Walker A/P-loop; other site 1006007002295 ATP binding site [chemical binding]; other site 1006007002296 Q-loop/lid; other site 1006007002297 ABC transporter signature motif; other site 1006007002298 Walker B; other site 1006007002299 D-loop; other site 1006007002300 H-loop/switch region; other site 1006007002301 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1006007002302 PhoU domain; Region: PhoU; pfam01895 1006007002303 PhoU domain; Region: PhoU; pfam01895 1006007002304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 1006007002305 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1006007002306 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 1006007002307 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1006007002308 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1006007002309 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1006007002310 Substrate binding site; other site 1006007002311 Mg++ binding site; other site 1006007002312 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1006007002313 putative trimer interface [polypeptide binding]; other site 1006007002314 putative CoA binding site [chemical binding]; other site 1006007002315 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1006007002316 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 1006007002317 active site 1006007002318 substrate binding site [chemical binding]; other site 1006007002319 metal binding site [ion binding]; metal-binding site 1006007002320 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1006007002321 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1006007002322 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1006007002323 Integral membrane protein DUF92; Region: DUF92; pfam01940 1006007002324 Rhomboid family; Region: Rhomboid; pfam01694 1006007002325 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 1006007002326 TPR motif; other site 1006007002327 binding surface 1006007002328 TPR repeat; Region: TPR_11; pfam13414 1006007002329 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1006007002330 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1006007002331 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1006007002332 nucleotide binding site [chemical binding]; other site 1006007002333 potential frameshift: common BLAST hit: gi|294501243|ref|YP_003564943.1| gamma-D-glutamyl-L-diamino acid endopeptidase I 1006007002334 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1006007002335 Zn binding site [ion binding]; other site 1006007002336 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1006007002337 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 1006007002338 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1006007002339 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 1006007002340 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 1006007002341 ArsC family; Region: ArsC; pfam03960 1006007002342 putative catalytic residues [active] 1006007002343 thiol/disulfide switch; other site 1006007002344 Type II/IV secretion system protein; Region: T2SE; pfam00437 1006007002345 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1006007002346 Walker A motif; other site 1006007002347 ATP binding site [chemical binding]; other site 1006007002348 Walker B motif; other site 1006007002349 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1006007002350 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1006007002351 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1006007002352 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1006007002353 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1006007002354 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1006007002355 ComG operon protein 7; Region: ComGG; pfam14173 1006007002356 YqzE-like protein; Region: YqzE; pfam14038 1006007002357 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 1006007002358 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1006007002359 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 1006007002360 ATP binding site [chemical binding]; other site 1006007002361 putative Mg++ binding site [ion binding]; other site 1006007002362 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 1006007002363 nucleotide binding region [chemical binding]; other site 1006007002364 ATP-binding site [chemical binding]; other site 1006007002365 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1006007002366 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1006007002367 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1006007002368 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 1006007002369 active site residue [active] 1006007002370 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1006007002371 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1006007002372 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1006007002373 potential frameshift: common BLAST hit: gi|375009501|ref|YP_004983134.1| ribonucleoside-diphosphate reductase 1006007002374 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1006007002375 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1006007002376 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1006007002377 manganese transport transcriptional regulator; Provisional; Region: PRK03902 1006007002378 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1006007002379 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1006007002380 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1006007002381 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1006007002382 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1006007002383 Predicted metal-dependent enzyme [General function prediction only]; Region: COG3872 1006007002384 Conserved membrane protein YqhR; Region: YqhR; pfam11085 1006007002385 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1006007002386 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 1006007002387 trimer interface [polypeptide binding]; other site 1006007002388 active site 1006007002389 dimer interface [polypeptide binding]; other site 1006007002390 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 1006007002391 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 1006007002392 Walker A motif; other site 1006007002393 ATP binding site [chemical binding]; other site 1006007002394 Walker B motif; other site 1006007002395 arginine finger; other site 1006007002396 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 1006007002397 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 1006007002398 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 1006007002399 stage III sporulation protein AE; Region: spore_III_AE; TIGR02829 1006007002400 potential frameshift: common BLAST hit: gi|295706556|ref|YP_003599631.1| stage III sporulation protein AF 1006007002401 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 1006007002402 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 1006007002403 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 1006007002404 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1006007002405 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 1006007002406 carboxyltransferase (CT) interaction site; other site 1006007002407 biotinylation site [posttranslational modification]; other site 1006007002408 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1006007002409 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1006007002410 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1006007002411 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1006007002412 Asp23 family; Region: Asp23; pfam03780 1006007002413 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 1006007002414 putative RNA binding site [nucleotide binding]; other site 1006007002415 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1006007002416 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 1006007002417 generic binding surface II; other site 1006007002418 generic binding surface I; other site 1006007002419 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1006007002420 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14063 1006007002421 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1006007002422 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1006007002423 substrate binding pocket [chemical binding]; other site 1006007002424 chain length determination region; other site 1006007002425 substrate-Mg2+ binding site; other site 1006007002426 catalytic residues [active] 1006007002427 aspartate-rich region 1; other site 1006007002428 active site lid residues [active] 1006007002429 aspartate-rich region 2; other site 1006007002430 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1006007002431 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 1006007002432 TPP-binding site; other site 1006007002433 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 1006007002434 PYR/PP interface [polypeptide binding]; other site 1006007002435 dimer interface [polypeptide binding]; other site 1006007002436 TPP binding site [chemical binding]; other site 1006007002437 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1006007002438 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1006007002439 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 1006007002440 RNA binding surface [nucleotide binding]; other site 1006007002441 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1006007002442 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1006007002443 arginine repressor; Provisional; Region: PRK04280 1006007002444 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1006007002445 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1006007002446 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1006007002447 Walker A/P-loop; other site 1006007002448 ATP binding site [chemical binding]; other site 1006007002449 Q-loop/lid; other site 1006007002450 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1006007002451 ABC transporter signature motif; other site 1006007002452 Walker B; other site 1006007002453 D-loop; other site 1006007002454 H-loop/switch region; other site 1006007002455 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 1006007002456 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 1006007002457 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 1006007002458 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 1006007002459 active site 1006007002460 phosphorylation site [posttranslational modification] 1006007002461 intermolecular recognition site; other site 1006007002462 dimerization interface [polypeptide binding]; other site 1006007002463 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 1006007002464 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1006007002465 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 1006007002466 putative substrate translocation pore; other site 1006007002467 YycC-like protein; Region: YycC; pfam14174 1006007002468 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 1006007002469 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1006007002470 active site 1006007002471 catalytic site [active] 1006007002472 metal binding site [ion binding]; metal-binding site 1006007002473 dimer interface [polypeptide binding]; other site 1006007002474 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 1006007002475 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1006007002476 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 1006007002477 putative active site [active] 1006007002478 heme pocket [chemical binding]; other site 1006007002479 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 1006007002480 putative active site [active] 1006007002481 heme pocket [chemical binding]; other site 1006007002482 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 1006007002483 Walker A motif; other site 1006007002484 ATP binding site [chemical binding]; other site 1006007002485 Walker B motif; other site 1006007002486 arginine finger; other site 1006007002487 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1006007002488 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1006007002489 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1006007002490 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1006007002491 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1006007002492 NAD binding site [chemical binding]; other site 1006007002493 Phe binding site; other site 1006007002494 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1006007002495 nucleotide binding site [chemical binding]; other site 1006007002496 Acetokinase family; Region: Acetate_kinase; cl17229 1006007002497 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1006007002498 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1006007002499 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007002500 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1006007002501 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1006007002502 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1006007002503 tetramer interface [polypeptide binding]; other site 1006007002504 TPP-binding site [chemical binding]; other site 1006007002505 heterodimer interface [polypeptide binding]; other site 1006007002506 phosphorylation loop region [posttranslational modification] 1006007002507 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1006007002508 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1006007002509 alpha subunit interface [polypeptide binding]; other site 1006007002510 TPP binding site [chemical binding]; other site 1006007002511 heterodimer interface [polypeptide binding]; other site 1006007002512 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1006007002513 potential frameshift: common BLAST hit: gi|294501181|ref|YP_003564881.1| lipoamide acyltransferase E2 component of branched-chain alpha-keto 1006007002514 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1006007002515 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 1006007002516 E3 interaction surface; other site 1006007002517 lipoyl attachment site [posttranslational modification]; other site 1006007002518 e3 binding domain; Region: E3_binding; pfam02817 1006007002519 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1006007002520 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1006007002521 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1006007002522 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 1006007002523 heterodimer interface [polypeptide binding]; other site 1006007002524 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1006007002525 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1006007002526 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 1006007002527 active site 1006007002528 substrate binding site [chemical binding]; other site 1006007002529 coenzyme B12 binding site [chemical binding]; other site 1006007002530 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1006007002531 B12 binding site [chemical binding]; other site 1006007002532 cobalt ligand [ion binding]; other site 1006007002533 membrane ATPase/protein kinase; Provisional; Region: PRK09435 1006007002534 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 1006007002535 Walker A; other site 1006007002536 Disulphide isomerase; Region: Disulph_isomer; pfam06491 1006007002537 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 1006007002538 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1006007002539 substrate binding pocket [chemical binding]; other site 1006007002540 membrane-bound complex binding site; other site 1006007002541 hinge residues; other site 1006007002542 Predicted membrane protein [Function unknown]; Region: COG4129 1006007002543 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1006007002544 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 1006007002545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1006007002546 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1006007002547 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007002548 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1006007002549 dimer interface [polypeptide binding]; other site 1006007002550 substrate binding site [chemical binding]; other site 1006007002551 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 1006007002552 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1006007002553 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1006007002554 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 1006007002555 peptidase T-like protein; Region: PepT-like; TIGR01883 1006007002556 metal binding site [ion binding]; metal-binding site 1006007002557 putative dimer interface [polypeptide binding]; other site 1006007002558 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1006007002559 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 1006007002560 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1006007002561 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007002562 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1006007002563 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1006007002564 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1006007002565 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1006007002566 tetrameric interface [polypeptide binding]; other site 1006007002567 NAD binding site [chemical binding]; other site 1006007002568 catalytic residues [active] 1006007002569 aminotransferase; Validated; Region: PRK07678 1006007002570 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 1006007002571 inhibitor-cofactor binding pocket; inhibition site 1006007002572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007002573 catalytic residue [active] 1006007002574 ribonuclease Z; Region: RNase_Z; TIGR02651 1006007002575 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1006007002576 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1006007002577 active site 1006007002578 FMN binding site [chemical binding]; other site 1006007002579 substrate binding site [chemical binding]; other site 1006007002580 homotetramer interface [polypeptide binding]; other site 1006007002581 catalytic residue [active] 1006007002582 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK07679 1006007002583 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1006007002584 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1006007002585 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1006007002586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007002587 NAD(P) binding site [chemical binding]; other site 1006007002588 active site 1006007002589 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 1006007002590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 1006007002591 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1006007002592 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1006007002593 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1006007002594 active site 1006007002595 catalytic residues [active] 1006007002596 metal binding site [ion binding]; metal-binding site 1006007002597 putative acyltransferase; Provisional; Region: PRK05790 1006007002598 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 1006007002599 dimer interface [polypeptide binding]; other site 1006007002600 active site 1006007002601 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1006007002602 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1006007002603 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 1006007002604 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1006007002605 active site 1006007002606 catalytic tetrad [active] 1006007002607 Protein of unknown function (DUF3936); Region: DUF3936; pfam13072 1006007002608 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 1006007002609 dimer interface [polypeptide binding]; other site 1006007002610 ADP-ribose binding site [chemical binding]; other site 1006007002611 active site 1006007002612 nudix motif; other site 1006007002613 metal binding site [ion binding]; metal-binding site 1006007002614 stage II sporulation protein M; Region: spo_II_M; TIGR02831 1006007002615 ferric uptake regulator; Provisional; Region: fur; PRK09462 1006007002616 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1006007002617 metal binding site 2 [ion binding]; metal-binding site 1006007002618 putative DNA binding helix; other site 1006007002619 metal binding site 1 [ion binding]; metal-binding site 1006007002620 dimer interface [polypeptide binding]; other site 1006007002621 structural Zn2+ binding site [ion binding]; other site 1006007002622 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 1006007002623 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1006007002624 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 1006007002625 active site 1006007002626 Int/Topo IB signature motif; other site 1006007002627 phosphopentomutase; Provisional; Region: PRK05362 1006007002628 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1006007002629 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1006007002630 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1006007002631 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1006007002632 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1006007002633 anti-sigma F factor antagonist; Region: spore_II_AA; TIGR02886 1006007002634 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1006007002635 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 1006007002636 ATP binding site [chemical binding]; other site 1006007002637 Mg2+ binding site [ion binding]; other site 1006007002638 G-X-G motif; other site 1006007002639 sporulation sigma factor SigF; Validated; Region: PRK05572 1006007002640 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007002641 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1006007002642 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 1006007002643 DNA binding residues [nucleotide binding] 1006007002644 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 1006007002645 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 1006007002646 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 1006007002647 stage V sporulation protein AD; Validated; Region: PRK08304 1006007002648 stage V sporulation protein AD; Provisional; Region: PRK12404 1006007002649 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 1006007002650 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 1006007002651 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1006007002652 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1006007002653 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1006007002654 active site 1006007002655 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1006007002656 substrate binding site [chemical binding]; other site 1006007002657 catalytic residues [active] 1006007002658 dimer interface [polypeptide binding]; other site 1006007002659 Predicted secreted protein [Function unknown]; Region: COG4086 1006007002660 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1006007002661 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1006007002662 active site 1006007002663 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007002664 Coenzyme A binding pocket [chemical binding]; other site 1006007002665 Domain of unknown function (DUF309); Region: DUF309; pfam03745 1006007002666 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1006007002667 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 1006007002668 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1006007002669 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1006007002670 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1006007002671 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1006007002672 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1006007002673 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1006007002674 catalytic residues [active] 1006007002675 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 1006007002676 ResB-like family; Region: ResB; pfam05140 1006007002677 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1006007002678 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1006007002679 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007002680 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 1006007002681 active site 1006007002682 phosphorylation site [posttranslational modification] 1006007002683 intermolecular recognition site; other site 1006007002684 dimerization interface [polypeptide binding]; other site 1006007002685 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 1006007002686 DNA binding site [nucleotide binding] 1006007002687 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1006007002688 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 1006007002689 dimerization interface [polypeptide binding]; other site 1006007002690 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 1006007002691 dimer interface [polypeptide binding]; other site 1006007002692 phosphorylation site [posttranslational modification] 1006007002693 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 1006007002694 ATP binding site [chemical binding]; other site 1006007002695 Mg2+ binding site [ion binding]; other site 1006007002696 G-X-G motif; other site 1006007002697 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1006007002698 Peptidase family M23; Region: Peptidase_M23; pfam01551 1006007002699 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007002700 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1006007002701 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1006007002702 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1006007002703 ligand binding site [chemical binding]; other site 1006007002704 NAD binding site [chemical binding]; other site 1006007002705 dimerization interface [polypeptide binding]; other site 1006007002706 catalytic site [active] 1006007002707 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1006007002708 putative L-serine binding site [chemical binding]; other site 1006007002709 Predicted membrane protein [Function unknown]; Region: COG3601 1006007002710 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1006007002711 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1006007002712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 1006007002713 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1006007002714 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 1006007002715 ATP binding site [chemical binding]; other site 1006007002716 putative Mg++ binding site [ion binding]; other site 1006007002717 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 1006007002718 nucleotide binding region [chemical binding]; other site 1006007002719 ATP-binding site [chemical binding]; other site 1006007002720 CAAX protease self-immunity; Region: Abi; pfam02517 1006007002721 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 1006007002722 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1006007002723 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1006007002724 putative active site [active] 1006007002725 putative metal binding site [ion binding]; other site 1006007002726 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007002727 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1006007002728 DNA binding residues [nucleotide binding] 1006007002729 B12 binding domain; Region: B12-binding_2; pfam02607 1006007002730 B12 binding domain; Region: B12-binding; pfam02310 1006007002731 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 1006007002732 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1006007002733 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1006007002734 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1006007002735 NAD(P) binding site [chemical binding]; other site 1006007002736 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 1006007002737 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1006007002738 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007002739 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1006007002740 active site 1006007002741 homotetramer interface [polypeptide binding]; other site 1006007002742 homodimer interface [polypeptide binding]; other site 1006007002743 Protease prsW family; Region: PrsW-protease; pfam13367 1006007002744 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007002745 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1006007002746 germination protein YpeB; Region: spore_YpeB; TIGR02889 1006007002747 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1006007002748 PilZ domain; Region: PilZ; pfam07238 1006007002749 cytidylate kinase; Provisional; Region: cmk; PRK00023 1006007002750 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 1006007002751 CMP-binding site; other site 1006007002752 The sites determining sugar specificity; other site 1006007002753 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1006007002754 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1006007002755 putative acyl-acceptor binding pocket; other site 1006007002756 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1006007002757 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1006007002758 RNA binding site [nucleotide binding]; other site 1006007002759 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 1006007002760 RNA binding site [nucleotide binding]; other site 1006007002761 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 1006007002762 RNA binding site [nucleotide binding]; other site 1006007002763 S1_RPS1_repeat_hs4: 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_hs4; cd05692 1006007002764 RNA binding site [nucleotide binding]; other site 1006007002765 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1006007002766 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 1006007002767 homotetramer interface [polypeptide binding]; other site 1006007002768 FMN binding site [chemical binding]; other site 1006007002769 homodimer contacts [polypeptide binding]; other site 1006007002770 putative active site [active] 1006007002771 putative substrate binding site [chemical binding]; other site 1006007002772 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 1006007002773 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007002774 putative substrate translocation pore; other site 1006007002775 YpzI-like protein; Region: YpzI; pfam14140 1006007002776 GTP-binding protein Der; Reviewed; Region: PRK00093 1006007002777 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1006007002778 G1 box; other site 1006007002779 GTP/Mg2+ binding site [chemical binding]; other site 1006007002780 Switch I region; other site 1006007002781 G2 box; other site 1006007002782 Switch II region; other site 1006007002783 G3 box; other site 1006007002784 G4 box; other site 1006007002785 G5 box; other site 1006007002786 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1006007002787 G1 box; other site 1006007002788 GTP/Mg2+ binding site [chemical binding]; other site 1006007002789 Switch I region; other site 1006007002790 G2 box; other site 1006007002791 G3 box; other site 1006007002792 Switch II region; other site 1006007002793 G4 box; other site 1006007002794 G5 box; other site 1006007002795 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1006007002796 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1006007002797 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1006007002798 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 1006007002799 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 1006007002800 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 1006007002801 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 1006007002802 IHF dimer interface [polypeptide binding]; other site 1006007002803 IHF - DNA interface [nucleotide binding]; other site 1006007002804 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1006007002805 homodecamer interface [polypeptide binding]; other site 1006007002806 GTP cyclohydrolase I; Provisional; Region: PLN03044 1006007002807 active site 1006007002808 putative catalytic site residues [active] 1006007002809 zinc binding site [ion binding]; other site 1006007002810 GTP-CH-I/GFRP interaction surface; other site 1006007002811 transcription attenuation protein MtrB; Provisional; Region: PRK13251 1006007002812 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 1006007002813 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1006007002814 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 1006007002815 S-adenosylmethionine binding site [chemical binding]; other site 1006007002816 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1006007002817 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1006007002818 substrate binding pocket [chemical binding]; other site 1006007002819 chain length determination region; other site 1006007002820 substrate-Mg2+ binding site; other site 1006007002821 catalytic residues [active] 1006007002822 aspartate-rich region 1; other site 1006007002823 active site lid residues [active] 1006007002824 aspartate-rich region 2; other site 1006007002825 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 1006007002826 active site 1006007002827 multimer interface [polypeptide binding]; other site 1006007002828 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1006007002829 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1006007002830 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 1006007002831 S-adenosylmethionine binding site [chemical binding]; other site 1006007002832 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1006007002833 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1006007002834 Tetramer interface [polypeptide binding]; other site 1006007002835 active site 1006007002836 FMN-binding site [chemical binding]; other site 1006007002837 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1006007002838 active site 1006007002839 dimer interface [polypeptide binding]; other site 1006007002840 metal binding site [ion binding]; metal-binding site 1006007002841 anthranilate synthase component I; Provisional; Region: PRK13569 1006007002842 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1006007002843 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1006007002844 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1006007002845 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1006007002846 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1006007002847 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 1006007002848 active site 1006007002849 ribulose/triose binding site [chemical binding]; other site 1006007002850 phosphate binding site [ion binding]; other site 1006007002851 substrate (anthranilate) binding pocket [chemical binding]; other site 1006007002852 product (indole) binding pocket [chemical binding]; other site 1006007002853 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 1006007002854 active site 1006007002855 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 1006007002856 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 1006007002857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007002858 homodimer interface [polypeptide binding]; other site 1006007002859 catalytic residue [active] 1006007002860 prephenate dehydrogenase; Validated; Region: PRK06545 1006007002861 prephenate dehydrogenase; Validated; Region: PRK08507 1006007002862 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 1006007002863 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1006007002864 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 1006007002865 hinge; other site 1006007002866 active site 1006007002867 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1006007002868 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 1006007002869 binding surface 1006007002870 TPR motif; other site 1006007002871 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1006007002872 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 1006007002873 binding surface 1006007002874 TPR motif; other site 1006007002875 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 1006007002876 binding surface 1006007002877 TPR repeat; Region: TPR_11; pfam13414 1006007002878 TPR motif; other site 1006007002879 hypothetical protein; Provisional; Region: PRK03636 1006007002880 UPF0302 domain; Region: UPF0302; pfam08864 1006007002881 IDEAL domain; Region: IDEAL; pfam08858 1006007002882 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 1006007002883 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1006007002884 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 1006007002885 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1006007002886 iron-sulfur cluster [ion binding]; other site 1006007002887 [2Fe-2S] cluster binding site [ion binding]; other site 1006007002888 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1006007002889 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1006007002890 interchain domain interface [polypeptide binding]; other site 1006007002891 intrachain domain interface; other site 1006007002892 heme bH binding site [chemical binding]; other site 1006007002893 Qi binding site; other site 1006007002894 heme bL binding site [chemical binding]; other site 1006007002895 Qo binding site; other site 1006007002896 Putative coat protein; Region: YlbD_coat; pfam14071 1006007002897 YlbE-like protein; Region: YlbE; pfam14003 1006007002898 Regulatory protein involved in competence development and sporulation [Replication, recombination and repair; Signal transduction mechanisms]; Region: COG3679 1006007002899 hypothetical protein; Provisional; Region: PRK02886 1006007002900 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1006007002901 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 1006007002902 S-adenosylmethionine binding site [chemical binding]; other site 1006007002903 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1006007002904 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1006007002905 active site 1006007002906 (T/H)XGH motif; other site 1006007002907 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 1006007002908 Nucleoside recognition; Region: Gate; pfam07670 1006007002909 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1006007002910 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1006007002911 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1006007002912 PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ...; Region: PDZ_LON_protease; cd00986 1006007002913 protein binding site [polypeptide binding]; other site 1006007002914 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1006007002915 hypothetical protein; Provisional; Region: PRK13670 1006007002916 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1006007002917 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1006007002918 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1006007002919 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1006007002920 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 1006007002921 substrate binding site [chemical binding]; other site 1006007002922 oxyanion hole (OAH) forming residues; other site 1006007002923 trimer interface [polypeptide binding]; other site 1006007002924 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 1006007002925 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 1006007002926 hypothetical protein; Provisional; Region: PRK13688 1006007002927 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007002928 Coenzyme A binding pocket [chemical binding]; other site 1006007002929 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 1006007002930 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1006007002931 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1006007002932 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1006007002933 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1006007002934 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1006007002935 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1006007002936 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1006007002937 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 1006007002938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 1006007002939 MraW methylase family; Region: Methyltransf_5; pfam01795 1006007002940 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1006007002941 Cell division protein FtsL; Region: FtsL; cl11433 1006007002942 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1006007002943 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1006007002944 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1006007002945 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 1006007002946 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 1006007002947 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 1006007002948 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1006007002949 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1006007002950 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 1006007002951 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1006007002952 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1006007002953 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1006007002954 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1006007002955 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1006007002956 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 1006007002957 Mg++ binding site [ion binding]; other site 1006007002958 putative catalytic motif [active] 1006007002959 putative substrate binding site [chemical binding]; other site 1006007002960 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1006007002961 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1006007002962 NAD binding site [chemical binding]; other site 1006007002963 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1006007002964 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1006007002965 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1006007002966 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1006007002967 FAD binding domain; Region: FAD_binding_4; pfam01565 1006007002968 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1006007002969 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1006007002970 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1006007002971 Cell division protein FtsQ; Region: FtsQ; pfam03799 1006007002972 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1006007002973 Cell division protein FtsA; Region: FtsA; smart00842 1006007002974 Cell division protein FtsA; Region: FtsA; pfam14450 1006007002975 cell division protein FtsZ; Validated; Region: PRK09330 1006007002976 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 1006007002977 nucleotide binding site [chemical binding]; other site 1006007002978 SulA interaction site; other site 1006007002979 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 1006007002980 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 1006007002981 sporulation sigma factor SigE; Reviewed; Region: PRK08301 1006007002982 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007002983 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 1006007002984 DNA binding residues [nucleotide binding] 1006007002985 sporulation sigma factor SigG; Reviewed; Region: PRK08215 1006007002986 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007002987 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1006007002988 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 1006007002989 DNA binding residues [nucleotide binding] 1006007002990 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 1006007002991 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1006007002992 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1006007002993 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1006007002994 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1006007002995 catalytic residue [active] 1006007002996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1006007002997 YGGT family; Region: YGGT; pfam02325 1006007002998 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1006007002999 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 1006007003000 RNA binding surface [nucleotide binding]; other site 1006007003001 DivIVA protein; Region: DivIVA; pfam05103 1006007003002 DivIVA domain; Region: DivI1A_domain; TIGR03544 1006007003003 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1006007003004 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1006007003005 active site 1006007003006 HIGH motif; other site 1006007003007 nucleotide binding site [chemical binding]; other site 1006007003008 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1006007003009 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1006007003010 active site 1006007003011 KMSKS motif; other site 1006007003012 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1006007003013 tRNA binding surface [nucleotide binding]; other site 1006007003014 anticodon binding site; other site 1006007003015 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1006007003016 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1006007003017 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1006007003018 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1006007003019 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 1006007003020 RNA binding surface [nucleotide binding]; other site 1006007003021 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1006007003022 active site 1006007003023 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1006007003024 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1006007003025 active site 1006007003026 uracil transporter; Provisional; Region: PRK10720 1006007003027 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1006007003028 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1006007003029 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1006007003030 dihydroorotase; Validated; Region: pyrC; PRK09357 1006007003031 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 1006007003032 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1006007003033 active site 1006007003034 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1006007003035 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1006007003036 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1006007003037 catalytic site [active] 1006007003038 subunit interface [polypeptide binding]; other site 1006007003039 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1006007003040 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1006007003041 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1006007003042 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1006007003043 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1006007003044 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1006007003045 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 1006007003046 IMP binding site; other site 1006007003047 dimer interface [polypeptide binding]; other site 1006007003048 interdomain contacts; other site 1006007003049 partial ornithine binding site; other site 1006007003050 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1006007003051 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1006007003052 FAD binding pocket [chemical binding]; other site 1006007003053 FAD binding motif [chemical binding]; other site 1006007003054 phosphate binding motif [ion binding]; other site 1006007003055 beta-alpha-beta structure motif; other site 1006007003056 NAD binding pocket [chemical binding]; other site 1006007003057 Iron coordination center [ion binding]; other site 1006007003058 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1006007003059 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 1006007003060 heterodimer interface [polypeptide binding]; other site 1006007003061 active site 1006007003062 FMN binding site [chemical binding]; other site 1006007003063 homodimer interface [polypeptide binding]; other site 1006007003064 substrate binding site [chemical binding]; other site 1006007003065 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 1006007003066 active site 1006007003067 dimer interface [polypeptide binding]; other site 1006007003068 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1006007003069 active site 1006007003070 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1006007003071 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1006007003072 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1006007003073 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1006007003074 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1006007003075 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1006007003076 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 1006007003077 motif II; other site 1006007003078 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1006007003079 hypothetical protein; Provisional; Region: PRK11820 1006007003080 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1006007003081 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1006007003082 hypothetical protein; Provisional; Region: PRK04323 1006007003083 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1006007003084 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 1006007003085 catalytic site [active] 1006007003086 G-X2-G-X-G-K; other site 1006007003087 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1006007003088 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1006007003089 Flavoprotein; Region: Flavoprotein; pfam02441 1006007003090 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1006007003091 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 1006007003092 primosomal protein N' Region: priA; TIGR00595 1006007003093 ATP binding site [chemical binding]; other site 1006007003094 putative Mg++ binding site [ion binding]; other site 1006007003095 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 1006007003096 nucleotide binding region [chemical binding]; other site 1006007003097 ATP-binding site [chemical binding]; other site 1006007003098 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 1006007003099 active site 1006007003100 catalytic residues [active] 1006007003101 metal binding site [ion binding]; metal-binding site 1006007003102 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 1006007003103 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 1006007003104 FeS/SAM binding site; other site 1006007003105 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 1006007003106 Protein phosphatase 2C; Region: PP2C; pfam00481 1006007003107 active site 1006007003108 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1006007003109 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1006007003110 active site 1006007003111 ATP binding site [chemical binding]; other site 1006007003112 substrate binding site [chemical binding]; other site 1006007003113 activation loop (A-loop); other site 1006007003114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1006007003115 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1006007003116 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1006007003117 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1006007003118 GTPase RsgA; Reviewed; Region: PRK00098 1006007003119 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 1006007003120 RNA binding site [nucleotide binding]; other site 1006007003121 homodimer interface [polypeptide binding]; other site 1006007003122 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1006007003123 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1006007003124 GTP/Mg2+ binding site [chemical binding]; other site 1006007003125 G4 box; other site 1006007003126 G5 box; other site 1006007003127 G1 box; other site 1006007003128 Switch I region; other site 1006007003129 G2 box; other site 1006007003130 G3 box; other site 1006007003131 Switch II region; other site 1006007003132 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1006007003133 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 1006007003134 substrate binding site [chemical binding]; other site 1006007003135 hexamer interface [polypeptide binding]; other site 1006007003136 metal binding site [ion binding]; metal-binding site 1006007003137 Thiamine pyrophosphokinase; Region: TPK; cd07995 1006007003138 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1006007003139 active site 1006007003140 dimerization interface [polypeptide binding]; other site 1006007003141 thiamine binding site [chemical binding]; other site 1006007003142 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1006007003143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1006007003144 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1006007003145 DAK2 domain; Region: Dak2; pfam02734 1006007003146 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1006007003147 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1006007003148 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1006007003149 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1006007003150 putative L-serine binding site [chemical binding]; other site 1006007003151 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1006007003152 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1006007003153 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1006007003154 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 1006007003155 generic binding surface II; other site 1006007003156 ssDNA binding site; other site 1006007003157 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 1006007003158 ATP binding site [chemical binding]; other site 1006007003159 putative Mg++ binding site [ion binding]; other site 1006007003160 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 1006007003161 nucleotide binding region [chemical binding]; other site 1006007003162 ATP-binding site [chemical binding]; other site 1006007003163 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 1006007003164 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1006007003165 active site 2 [active] 1006007003166 active site 1 [active] 1006007003167 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1006007003168 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1006007003169 NAD(P) binding site [chemical binding]; other site 1006007003170 homotetramer interface [polypeptide binding]; other site 1006007003171 homodimer interface [polypeptide binding]; other site 1006007003172 active site 1006007003173 acyl carrier protein; Provisional; Region: acpP; PRK00982 1006007003174 ribonuclease III; Reviewed; Region: rnc; PRK00102 1006007003175 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 1006007003176 dimerization interface [polypeptide binding]; other site 1006007003177 active site 1006007003178 metal binding site [ion binding]; metal-binding site 1006007003179 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 1006007003180 dsRNA binding site [nucleotide binding]; other site 1006007003181 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1006007003182 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1006007003183 Walker A/P-loop; other site 1006007003184 ATP binding site [chemical binding]; other site 1006007003185 Q-loop/lid; other site 1006007003186 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1006007003187 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1006007003188 ABC transporter signature motif; other site 1006007003189 Walker B; other site 1006007003190 D-loop; other site 1006007003191 H-loop/switch region; other site 1006007003192 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1006007003193 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1006007003194 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 1006007003195 P loop; other site 1006007003196 GTP binding site [chemical binding]; other site 1006007003197 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1006007003198 putative DNA-binding protein; Validated; Region: PRK00118 1006007003199 signal recognition particle protein; Provisional; Region: PRK10867 1006007003200 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1006007003201 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 1006007003202 P loop; other site 1006007003203 GTP binding site [chemical binding]; other site 1006007003204 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1006007003205 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1006007003206 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1006007003207 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1006007003208 G-X-X-G motif; other site 1006007003209 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 1006007003210 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1006007003211 RimM N-terminal domain; Region: RimM; pfam01782 1006007003212 PRC-barrel domain; Region: PRC; pfam05239 1006007003213 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1006007003214 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1006007003215 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1006007003216 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 1006007003217 Catalytic site [active] 1006007003218 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1006007003219 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1006007003220 GTP/Mg2+ binding site [chemical binding]; other site 1006007003221 G4 box; other site 1006007003222 G5 box; other site 1006007003223 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1006007003224 G1 box; other site 1006007003225 G1 box; other site 1006007003226 GTP/Mg2+ binding site [chemical binding]; other site 1006007003227 Switch I region; other site 1006007003228 G2 box; other site 1006007003229 G2 box; other site 1006007003230 G3 box; other site 1006007003231 G3 box; other site 1006007003232 Switch II region; other site 1006007003233 Switch II region; other site 1006007003234 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1006007003235 RNA/DNA hybrid binding site [nucleotide binding]; other site 1006007003236 active site 1006007003237 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1006007003238 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1006007003239 CoA-ligase; Region: Ligase_CoA; pfam00549 1006007003240 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1006007003241 CoA binding domain; Region: CoA_binding; pfam02629 1006007003242 CoA-ligase; Region: Ligase_CoA; pfam00549 1006007003243 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1006007003244 DNA protecting protein DprA; Region: dprA; TIGR00732 1006007003245 DNA topoisomerase I; Validated; Region: PRK05582 1006007003246 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 1006007003247 active site 1006007003248 interdomain interaction site; other site 1006007003249 putative metal-binding site [ion binding]; other site 1006007003250 nucleotide binding site [chemical binding]; other site 1006007003251 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 1006007003252 domain I; other site 1006007003253 DNA binding groove [nucleotide binding] 1006007003254 phosphate binding site [ion binding]; other site 1006007003255 domain II; other site 1006007003256 domain III; other site 1006007003257 nucleotide binding site [chemical binding]; other site 1006007003258 catalytic site [active] 1006007003259 domain IV; other site 1006007003260 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1006007003261 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1006007003262 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 1006007003263 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1006007003264 Glucose inhibited division protein A; Region: GIDA; pfam01134 1006007003265 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1006007003266 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 1006007003267 active site 1006007003268 Int/Topo IB signature motif; other site 1006007003269 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 1006007003270 active site 1006007003271 HslU subunit interaction site [polypeptide binding]; other site 1006007003272 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1006007003273 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 1006007003274 Walker A motif; other site 1006007003275 ATP binding site [chemical binding]; other site 1006007003276 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1006007003277 Walker B motif; other site 1006007003278 arginine finger; other site 1006007003279 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1006007003280 transcriptional repressor CodY; Validated; Region: PRK04158 1006007003281 CodY GAF-like domain; Region: CodY; pfam06018 1006007003282 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 1006007003283 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1006007003284 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1006007003285 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1006007003286 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1006007003287 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1006007003288 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 1006007003289 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1006007003290 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1006007003291 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1006007003292 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1006007003293 FliG C-terminal domain; Region: FliG_C; pfam01706 1006007003294 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 1006007003295 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 1006007003296 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 1006007003297 Walker A motif/ATP binding site; other site 1006007003298 Walker B motif; other site 1006007003299 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1006007003300 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 1006007003301 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1006007003302 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1006007003303 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1006007003304 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1006007003305 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1006007003306 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 1006007003307 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1006007003308 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1006007003309 Flagellar protein (FlbD); Region: FlbD; pfam06289 1006007003310 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 1006007003311 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1006007003312 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1006007003313 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1006007003314 flagellar motor switch protein; Validated; Region: PRK08119 1006007003315 CheC-like family; Region: CheC; pfam04509 1006007003316 CheC-like family; Region: CheC; pfam04509 1006007003317 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1006007003318 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007003319 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 1006007003320 active site 1006007003321 phosphorylation site [posttranslational modification] 1006007003322 intermolecular recognition site; other site 1006007003323 dimerization interface [polypeptide binding]; other site 1006007003324 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 1006007003325 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1006007003326 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1006007003327 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1006007003328 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1006007003329 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1006007003330 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1006007003331 FHIPEP family; Region: FHIPEP; pfam00771 1006007003332 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1006007003333 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 1006007003334 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1006007003335 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 1006007003336 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 1006007003337 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1006007003338 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 1006007003339 active site 1006007003340 phosphorylation site [posttranslational modification] 1006007003341 intermolecular recognition site; other site 1006007003342 dimerization interface [polypeptide binding]; other site 1006007003343 CheB methylesterase; Region: CheB_methylest; pfam01339 1006007003344 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1006007003345 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 1006007003346 putative binding surface; other site 1006007003347 active site 1006007003348 P2 response regulator binding domain; Region: P2; pfam07194 1006007003349 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1006007003350 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 1006007003351 ATP binding site [chemical binding]; other site 1006007003352 Mg2+ binding site [ion binding]; other site 1006007003353 G-X-G motif; other site 1006007003354 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 1006007003355 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1006007003356 CheD chemotactic sensory transduction; Region: CheD; cl00810 1006007003357 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 1006007003358 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007003359 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1006007003360 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 1006007003361 DNA binding residues [nucleotide binding] 1006007003362 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 1006007003363 rRNA interaction site [nucleotide binding]; other site 1006007003364 S8 interaction site; other site 1006007003365 putative laminin-1 binding site; other site 1006007003366 elongation factor Ts; Provisional; Region: tsf; PRK09377 1006007003367 UBA/TS-N domain; Region: UBA; pfam00627 1006007003368 Elongation factor TS; Region: EF_TS; pfam00889 1006007003369 Elongation factor TS; Region: EF_TS; pfam00889 1006007003370 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 1006007003371 putative nucleotide binding site [chemical binding]; other site 1006007003372 uridine monophosphate binding site [chemical binding]; other site 1006007003373 homohexameric interface [polypeptide binding]; other site 1006007003374 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1006007003375 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 1006007003376 hinge region; other site 1006007003377 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1006007003378 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 1006007003379 catalytic residue [active] 1006007003380 putative FPP diphosphate binding site; other site 1006007003381 putative FPP binding hydrophobic cleft; other site 1006007003382 dimer interface [polypeptide binding]; other site 1006007003383 putative IPP diphosphate binding site; other site 1006007003384 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1006007003385 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1006007003386 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1006007003387 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1006007003388 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1006007003389 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1006007003390 RIP metalloprotease RseP; Region: TIGR00054 1006007003391 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 1006007003392 active site 1006007003393 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1006007003394 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 1006007003395 protein binding site [polypeptide binding]; other site 1006007003396 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 1006007003397 putative substrate binding region [chemical binding]; other site 1006007003398 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1006007003399 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 1006007003400 dimer interface [polypeptide binding]; other site 1006007003401 motif 1; other site 1006007003402 active site 1006007003403 motif 2; other site 1006007003404 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 1006007003405 putative deacylase active site [active] 1006007003406 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 1006007003407 active site 1006007003408 motif 3; other site 1006007003409 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 1006007003410 anticodon binding site; other site 1006007003411 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1006007003412 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1006007003413 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 1006007003414 generic binding surface II; other site 1006007003415 generic binding surface I; other site 1006007003416 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1006007003417 active site 1006007003418 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1006007003419 active site 1006007003420 catalytic site [active] 1006007003421 substrate binding site [chemical binding]; other site 1006007003422 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1006007003423 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1006007003424 Sm and related proteins; Region: Sm_like; cl00259 1006007003425 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1006007003426 putative oligomer interface [polypeptide binding]; other site 1006007003427 putative RNA binding site [nucleotide binding]; other site 1006007003428 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1006007003429 NusA N-terminal domain; Region: NusA_N; pfam08529 1006007003430 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 1006007003431 RNA binding site [nucleotide binding]; other site 1006007003432 homodimer interface [polypeptide binding]; other site 1006007003433 NusA-like KH domain; Region: KH_5; pfam13184 1006007003434 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 1006007003435 G-X-X-G motif; other site 1006007003436 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 1006007003437 putative RNA binding cleft [nucleotide binding]; other site 1006007003438 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1006007003439 translation initiation factor IF-2; Region: IF-2; TIGR00487 1006007003440 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1006007003441 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1006007003442 G1 box; other site 1006007003443 putative GEF interaction site [polypeptide binding]; other site 1006007003444 GTP/Mg2+ binding site [chemical binding]; other site 1006007003445 Switch I region; other site 1006007003446 G2 box; other site 1006007003447 G3 box; other site 1006007003448 Switch II region; other site 1006007003449 G4 box; other site 1006007003450 G5 box; other site 1006007003451 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 1006007003452 Translation-initiation factor 2; Region: IF-2; pfam11987 1006007003453 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 1006007003454 Protein of unknown function (DUF503); Region: DUF503; cl00669 1006007003455 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1006007003456 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 1006007003457 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1006007003458 RNA binding site [nucleotide binding]; other site 1006007003459 active site 1006007003460 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1006007003461 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1006007003462 Riboflavin kinase; Region: Flavokinase; pfam01687 1006007003463 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 1006007003464 16S/18S rRNA binding site [nucleotide binding]; other site 1006007003465 S13e-L30e interaction site [polypeptide binding]; other site 1006007003466 25S rRNA binding site [nucleotide binding]; other site 1006007003467 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1006007003468 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1006007003469 RNase E interface [polypeptide binding]; other site 1006007003470 trimer interface [polypeptide binding]; other site 1006007003471 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1006007003472 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1006007003473 RNase E interface [polypeptide binding]; other site 1006007003474 trimer interface [polypeptide binding]; other site 1006007003475 active site 1006007003476 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 1006007003477 putative nucleic acid binding region [nucleotide binding]; other site 1006007003478 G-X-X-G motif; other site 1006007003479 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 1006007003480 RNA binding site [nucleotide binding]; other site 1006007003481 domain interface; other site 1006007003482 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 1006007003483 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 1006007003484 NodB motif; other site 1006007003485 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1006007003486 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1006007003487 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1006007003488 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 1006007003489 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 1006007003490 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1006007003491 NAD binding site [chemical binding]; other site 1006007003492 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 1006007003493 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1006007003494 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1006007003495 aspartate kinase I; Reviewed; Region: PRK08210 1006007003496 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 1006007003497 nucleotide binding site [chemical binding]; other site 1006007003498 substrate binding site [chemical binding]; other site 1006007003499 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 1006007003500 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 1006007003501 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1006007003502 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1006007003503 dimer interface [polypeptide binding]; other site 1006007003504 active site 1006007003505 catalytic residue [active] 1006007003506 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1006007003507 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1006007003508 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1006007003509 Clp protease; Region: CLP_protease; pfam00574 1006007003510 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1006007003511 active site 1006007003512 YlzJ-like protein; Region: YlzJ; pfam14035 1006007003513 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1006007003514 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1006007003515 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1006007003516 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1006007003517 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007003518 DNA-binding site [nucleotide binding]; DNA binding site 1006007003519 UTRA domain; Region: UTRA; pfam07702 1006007003520 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1006007003521 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1006007003522 ligand binding site [chemical binding]; other site 1006007003523 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1006007003524 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1006007003525 Walker A/P-loop; other site 1006007003526 ATP binding site [chemical binding]; other site 1006007003527 Q-loop/lid; other site 1006007003528 ABC transporter signature motif; other site 1006007003529 Walker B; other site 1006007003530 D-loop; other site 1006007003531 H-loop/switch region; other site 1006007003532 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1006007003533 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1006007003534 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1006007003535 TM-ABC transporter signature motif; other site 1006007003536 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1006007003537 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1006007003538 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1006007003539 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1006007003540 classical (c) SDRs; Region: SDR_c; cd05233 1006007003541 NAD(P) binding site [chemical binding]; other site 1006007003542 active site 1006007003543 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 1006007003544 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 1006007003545 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 1006007003546 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1006007003547 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 1006007003548 non-specific DNA binding site [nucleotide binding]; other site 1006007003549 salt bridge; other site 1006007003550 sequence-specific DNA binding site [nucleotide binding]; other site 1006007003551 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1006007003552 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 1006007003553 competence damage-inducible protein A; Provisional; Region: PRK00549 1006007003554 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 1006007003555 putative MPT binding site; other site 1006007003556 Competence-damaged protein; Region: CinA; pfam02464 1006007003557 recombinase A; Provisional; Region: recA; PRK09354 1006007003558 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 1006007003559 hexamer interface [polypeptide binding]; other site 1006007003560 Walker A motif; other site 1006007003561 ATP binding site [chemical binding]; other site 1006007003562 Walker B motif; other site 1006007003563 phosphodiesterase; Provisional; Region: PRK12704 1006007003564 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1006007003565 Zn2+ binding site [ion binding]; other site 1006007003566 Mg2+ binding site [ion binding]; other site 1006007003567 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1006007003568 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1006007003569 putative active site [active] 1006007003570 metal binding site [ion binding]; metal-binding site 1006007003571 homodimer binding site [polypeptide binding]; other site 1006007003572 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 1006007003573 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 1006007003574 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1006007003575 active site 1006007003576 dimer interface [polypeptide binding]; other site 1006007003577 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 1006007003578 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1006007003579 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 1006007003580 dimer interface [polypeptide binding]; other site 1006007003581 PYR/PP interface [polypeptide binding]; other site 1006007003582 TPP binding site [chemical binding]; other site 1006007003583 substrate binding site [chemical binding]; other site 1006007003584 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 1006007003585 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 1006007003586 TPP-binding site [chemical binding]; other site 1006007003587 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 1006007003588 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 1006007003589 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1006007003590 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 1006007003591 FeS/SAM binding site; other site 1006007003592 Predicted membrane protein [Function unknown]; Region: COG4550 1006007003593 Outer spore coat protein E (CotE); Region: CotE; pfam10628 1006007003594 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1006007003595 amino acid transporter; Region: 2A0306; TIGR00909 1006007003596 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1006007003597 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1006007003598 MutS domain I; Region: MutS_I; pfam01624 1006007003599 MutS domain II; Region: MutS_II; pfam05188 1006007003600 MutS domain III; Region: MutS_III; pfam05192 1006007003601 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1006007003602 Walker A/P-loop; other site 1006007003603 ATP binding site [chemical binding]; other site 1006007003604 Q-loop/lid; other site 1006007003605 ABC transporter signature motif; other site 1006007003606 Walker B; other site 1006007003607 D-loop; other site 1006007003608 H-loop/switch region; other site 1006007003609 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1006007003610 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 1006007003611 ATP binding site [chemical binding]; other site 1006007003612 Mg2+ binding site [ion binding]; other site 1006007003613 G-X-G motif; other site 1006007003614 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1006007003615 ATP binding site [chemical binding]; other site 1006007003616 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1006007003617 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1006007003618 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1006007003619 bacterial Hfq-like; Region: Hfq; cd01716 1006007003620 hexamer interface [polypeptide binding]; other site 1006007003621 Sm1 motif; other site 1006007003622 RNA binding site [nucleotide binding]; other site 1006007003623 Sm2 motif; other site 1006007003624 stage V sporulation protein K; Region: spore_V_K; TIGR02881 1006007003625 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 1006007003626 Walker A motif; other site 1006007003627 ATP binding site [chemical binding]; other site 1006007003628 Walker B motif; other site 1006007003629 arginine finger; other site 1006007003630 Predicted membrane protein [Function unknown]; Region: COG2860 1006007003631 UPF0126 domain; Region: UPF0126; pfam03458 1006007003632 UPF0126 domain; Region: UPF0126; pfam03458 1006007003633 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1006007003634 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1006007003635 HflX GTPase family; Region: HflX; cd01878 1006007003636 G1 box; other site 1006007003637 GTP/Mg2+ binding site [chemical binding]; other site 1006007003638 Switch I region; other site 1006007003639 G2 box; other site 1006007003640 G3 box; other site 1006007003641 Switch II region; other site 1006007003642 G4 box; other site 1006007003643 G5 box; other site 1006007003644 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1006007003645 Aluminium resistance protein; Region: Alum_res; pfam06838 1006007003646 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1006007003647 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007003648 DNA binding residues [nucleotide binding] 1006007003649 glutamine synthetase, type I; Region: GlnA; TIGR00653 1006007003650 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1006007003651 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1006007003652 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1006007003653 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 1006007003654 active site 1006007003655 metal binding site [ion binding]; metal-binding site 1006007003656 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007003657 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1006007003658 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007003659 Amino acid permease; Region: AA_permease_2; pfam13520 1006007003660 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1006007003661 Cation efflux family; Region: Cation_efflux; pfam01545 1006007003662 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1006007003663 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1006007003664 Ligand binding site; other site 1006007003665 Putative Catalytic site; other site 1006007003666 DXD motif; other site 1006007003667 Predicted membrane protein [Function unknown]; Region: COG2246 1006007003668 GtrA-like protein; Region: GtrA; pfam04138 1006007003669 conserved hypothetical integral membrane protein; Region: TIGR03766 1006007003670 LexA repressor; Validated; Region: PRK00215 1006007003671 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 1006007003672 putative DNA binding site [nucleotide binding]; other site 1006007003673 putative Zn2+ binding site [ion binding]; other site 1006007003674 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 1006007003675 Catalytic site [active] 1006007003676 cell division suppressor protein YneA; Provisional; Region: PRK14125 1006007003677 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007003678 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1006007003679 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1006007003680 catalytic residues [active] 1006007003681 catalytic nucleophile [active] 1006007003682 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 1006007003683 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1006007003684 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 1006007003685 TPP-binding site [chemical binding]; other site 1006007003686 dimer interface [polypeptide binding]; other site 1006007003687 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 1006007003688 PYR/PP interface [polypeptide binding]; other site 1006007003689 dimer interface [polypeptide binding]; other site 1006007003690 TPP binding site [chemical binding]; other site 1006007003691 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1006007003692 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 1006007003693 hypothetical protein; Provisional; Region: PRK01844 1006007003694 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1006007003695 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1006007003696 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007003697 Walker A/P-loop; other site 1006007003698 ATP binding site [chemical binding]; other site 1006007003699 Q-loop/lid; other site 1006007003700 ABC transporter signature motif; other site 1006007003701 Walker B; other site 1006007003702 D-loop; other site 1006007003703 H-loop/switch region; other site 1006007003704 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 1006007003705 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1006007003706 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1006007003707 Walker A/P-loop; other site 1006007003708 ATP binding site [chemical binding]; other site 1006007003709 Q-loop/lid; other site 1006007003710 ABC transporter signature motif; other site 1006007003711 Walker B; other site 1006007003712 D-loop; other site 1006007003713 H-loop/switch region; other site 1006007003714 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1006007003715 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1006007003716 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1006007003717 hypothetical protein; Provisional; Region: PRK04164 1006007003718 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007003719 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 1006007003720 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 1006007003721 4-aminobutyrate aminotransferase; Reviewed; Region: PRK06918 1006007003722 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 1006007003723 inhibitor-cofactor binding pocket; inhibition site 1006007003724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007003725 catalytic residue [active] 1006007003726 PAS domain; Region: PAS_9; pfam13426 1006007003727 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 1006007003728 putative active site [active] 1006007003729 heme pocket [chemical binding]; other site 1006007003730 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1006007003731 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 1006007003732 Walker A motif; other site 1006007003733 ATP binding site [chemical binding]; other site 1006007003734 Walker B motif; other site 1006007003735 arginine finger; other site 1006007003736 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1006007003737 succinic semialdehyde dehydrogenase; Region: PLN02278 1006007003738 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1006007003739 tetramerization interface [polypeptide binding]; other site 1006007003740 NAD(P) binding site [chemical binding]; other site 1006007003741 catalytic residues [active] 1006007003742 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 1006007003743 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1006007003744 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1006007003745 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 1006007003746 putative active site [active] 1006007003747 heme pocket [chemical binding]; other site 1006007003748 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 1006007003749 dimer interface [polypeptide binding]; other site 1006007003750 phosphorylation site [posttranslational modification] 1006007003751 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 1006007003752 ATP binding site [chemical binding]; other site 1006007003753 Mg2+ binding site [ion binding]; other site 1006007003754 G-X-G motif; other site 1006007003755 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1006007003756 DNA photolyase; Region: DNA_photolyase; pfam00875 1006007003757 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1006007003758 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1006007003759 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 1006007003760 inhibitor-cofactor binding pocket; inhibition site 1006007003761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007003762 catalytic residue [active] 1006007003763 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1006007003764 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 1006007003765 active site 1006007003766 dimerization interface [polypeptide binding]; other site 1006007003767 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1006007003768 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 1006007003769 folate binding site [chemical binding]; other site 1006007003770 NADP+ binding site [chemical binding]; other site 1006007003771 threonine dehydratase; Validated; Region: PRK08639 1006007003772 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 1006007003773 tetramer interface [polypeptide binding]; other site 1006007003774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007003775 catalytic residue [active] 1006007003776 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1006007003777 putative Ile/Val binding site [chemical binding]; other site 1006007003778 Protein of unknown function (DUF2535); Region: DUF2535; pfam10751 1006007003779 EDD domain protein, DegV family; Region: DegV; TIGR00762 1006007003780 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1006007003781 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1006007003782 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 1006007003783 dimerization interface [polypeptide binding]; other site 1006007003784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007003785 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 1006007003786 dimer interface [polypeptide binding]; other site 1006007003787 phosphorylation site [posttranslational modification] 1006007003788 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 1006007003789 ATP binding site [chemical binding]; other site 1006007003790 Mg2+ binding site [ion binding]; other site 1006007003791 G-X-G motif; other site 1006007003792 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1006007003793 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1006007003794 Cu(I) binding site [ion binding]; other site 1006007003795 Members of the SGNH-hydrolase superfamily, 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_YpmR_like; cd04506 1006007003796 active site 1006007003797 catalytic triad [active] 1006007003798 oxyanion hole [active] 1006007003799 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 1006007003800 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1006007003801 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1006007003802 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1006007003803 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 1006007003804 putative active site [active] 1006007003805 heme pocket [chemical binding]; other site 1006007003806 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 1006007003807 dimer interface [polypeptide binding]; other site 1006007003808 phosphorylation site [posttranslational modification] 1006007003809 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 1006007003810 ATP binding site [chemical binding]; other site 1006007003811 Mg2+ binding site [ion binding]; other site 1006007003812 G-X-G motif; other site 1006007003813 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1006007003814 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1006007003815 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1006007003816 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1006007003817 hypothetical protein; Provisional; Region: PRK06917 1006007003818 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 1006007003819 inhibitor-cofactor binding pocket; inhibition site 1006007003820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007003821 catalytic residue [active] 1006007003822 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1006007003823 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 1006007003824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007003825 Coenzyme A binding pocket [chemical binding]; other site 1006007003826 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 1006007003827 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 1006007003828 FeS/SAM binding site; other site 1006007003829 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 1006007003830 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 1006007003831 toxin interface [polypeptide binding]; other site 1006007003832 Zn binding site [ion binding]; other site 1006007003833 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1006007003834 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1006007003835 homodimer interface [polypeptide binding]; other site 1006007003836 substrate-cofactor binding pocket; other site 1006007003837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007003838 catalytic residue [active] 1006007003839 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1006007003840 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1006007003841 hypothetical protein; Provisional; Region: PRK13672 1006007003842 YozD-like protein; Region: YozD; pfam14162 1006007003843 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 1006007003844 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 1006007003845 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1006007003846 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1006007003847 active site 1006007003848 ATP binding site [chemical binding]; other site 1006007003849 substrate binding site [chemical binding]; other site 1006007003850 activation loop (A-loop); other site 1006007003851 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 1006007003852 SpoOM protein; Region: Spo0M; pfam07070 1006007003853 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1006007003854 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1006007003855 active site 1006007003856 YodL-like; Region: YodL; pfam14191 1006007003857 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1006007003858 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1006007003859 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1006007003860 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1006007003861 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1006007003862 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 1006007003863 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1006007003864 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1006007003865 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1006007003866 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 1006007003867 HPr interaction site; other site 1006007003868 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1006007003869 active site 1006007003870 phosphorylation site [posttranslational modification] 1006007003871 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1006007003872 CAT RNA binding domain; Region: CAT_RBD; smart01061 1006007003873 PRD domain; Region: PRD; pfam00874 1006007003874 PRD domain; Region: PRD; pfam00874 1006007003875 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1006007003876 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 1006007003877 active site turn [active] 1006007003878 phosphorylation site [posttranslational modification] 1006007003879 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1006007003880 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1006007003881 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1006007003882 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1006007003883 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1006007003884 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007003885 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1006007003886 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007003887 Walker A/P-loop; other site 1006007003888 ATP binding site [chemical binding]; other site 1006007003889 Q-loop/lid; other site 1006007003890 ABC transporter signature motif; other site 1006007003891 Walker B; other site 1006007003892 D-loop; other site 1006007003893 H-loop/switch region; other site 1006007003894 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1006007003895 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1006007003896 active site 1006007003897 catalytic site [active] 1006007003898 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 1006007003899 active site 1006007003900 putative catalytic site [active] 1006007003901 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1006007003902 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1006007003903 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007003904 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007003905 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007003906 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1006007003907 Predicted transcriptional regulators [Transcription]; Region: COG1725 1006007003908 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007003909 DNA-binding site [nucleotide binding]; DNA binding site 1006007003910 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1006007003911 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1006007003912 Walker A/P-loop; other site 1006007003913 ATP binding site [chemical binding]; other site 1006007003914 Q-loop/lid; other site 1006007003915 ABC transporter signature motif; other site 1006007003916 Walker B; other site 1006007003917 D-loop; other site 1006007003918 H-loop/switch region; other site 1006007003919 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 1006007003920 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1006007003921 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1006007003922 Spore germination protein; Region: Spore_permease; cl17796 1006007003923 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1006007003924 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 1006007003925 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1006007003926 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007003927 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007003928 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007003929 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 1006007003930 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1006007003931 active site 1006007003932 ADP/pyrophosphate binding site [chemical binding]; other site 1006007003933 dimerization interface [polypeptide binding]; other site 1006007003934 allosteric effector site; other site 1006007003935 fructose-1,6-bisphosphate binding site; other site 1006007003936 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]; Region: COG1107 1006007003937 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 1006007003938 Ligand Binding Site [chemical binding]; other site 1006007003939 NAD-dependent deacetylase; Provisional; Region: PRK00481 1006007003940 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1006007003941 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1006007003942 Domain of unknown function DUF21; Region: DUF21; pfam01595 1006007003943 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 1006007003944 Transporter associated domain; Region: CorC_HlyC; smart01091 1006007003945 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007003946 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1006007003947 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1006007003948 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1006007003949 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1006007003950 bile acid transporter; Region: bass; TIGR00841 1006007003951 Sodium Bile acid symporter family; Region: SBF; cl17470 1006007003952 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1006007003953 amino acid carrier protein; Region: agcS; TIGR00835 1006007003954 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1006007003955 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007003956 Coenzyme A binding pocket [chemical binding]; other site 1006007003957 EamA-like transporter family; Region: EamA; pfam00892 1006007003958 EamA-like transporter family; Region: EamA; pfam00892 1006007003959 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1006007003960 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1006007003961 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_12; cd07255 1006007003962 putative metal binding site [ion binding]; other site 1006007003963 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1006007003964 active site 1006007003965 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1006007003966 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1006007003967 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1006007003968 active site 1006007003969 metal binding site [ion binding]; metal-binding site 1006007003970 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1006007003971 Predicted membrane protein [Function unknown]; Region: COG2246 1006007003972 GtrA-like protein; Region: GtrA; pfam04138 1006007003973 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1006007003974 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1006007003975 Ligand binding site; other site 1006007003976 Putative Catalytic site; other site 1006007003977 DXD motif; other site 1006007003978 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007003979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007003980 Coenzyme A binding pocket [chemical binding]; other site 1006007003981 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1006007003982 Spore germination protein; Region: Spore_permease; cl17796 1006007003983 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1006007003984 putative metal binding site [ion binding]; other site 1006007003985 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007003986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007003987 Coenzyme A binding pocket [chemical binding]; other site 1006007003988 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 1006007003989 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007003990 DNA-binding site [nucleotide binding]; DNA binding site 1006007003991 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 1006007003992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007003993 homodimer interface [polypeptide binding]; other site 1006007003994 catalytic residue [active] 1006007003995 Protein of unknown function (DUF867); Region: DUF867; pfam05908 1006007003996 MgtC family; Region: MgtC; pfam02308 1006007003997 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1006007003998 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1006007003999 NAD binding site [chemical binding]; other site 1006007004000 substrate binding site [chemical binding]; other site 1006007004001 putative active site [active] 1006007004002 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1006007004003 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007004004 Coenzyme A binding pocket [chemical binding]; other site 1006007004005 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1006007004006 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007004007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007004008 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 1006007004009 putative dimerization interface [polypeptide binding]; other site 1006007004010 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 1006007004011 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007004012 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007004013 Predicted integral membrane protein [Function unknown]; Region: COG5505 1006007004014 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1006007004015 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 1006007004016 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 1006007004017 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1006007004018 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1006007004019 putative active site [active] 1006007004020 putative FMN binding site [chemical binding]; other site 1006007004021 putative substrate binding site [chemical binding]; other site 1006007004022 putative catalytic residue [active] 1006007004023 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1006007004024 EamA-like transporter family; Region: EamA; pfam00892 1006007004025 EamA-like transporter family; Region: EamA; pfam00892 1006007004026 Cupin domain; Region: Cupin_2; cl17218 1006007004027 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1006007004028 Sulfatase; Region: Sulfatase; pfam00884 1006007004029 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1006007004030 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007004031 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007004032 Coenzyme A binding pocket [chemical binding]; other site 1006007004033 hydroperoxidase II; Provisional; Region: katE; PRK11249 1006007004034 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1006007004035 tetramer interface [polypeptide binding]; other site 1006007004036 heme binding pocket [chemical binding]; other site 1006007004037 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1006007004038 domain interactions; other site 1006007004039 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1006007004040 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1006007004041 FMN binding site [chemical binding]; other site 1006007004042 substrate binding site [chemical binding]; other site 1006007004043 putative catalytic residue [active] 1006007004044 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1006007004045 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1006007004046 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1006007004047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007004048 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 1006007004049 dimer interface [polypeptide binding]; other site 1006007004050 phosphorylation site [posttranslational modification] 1006007004051 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 1006007004052 ATP binding site [chemical binding]; other site 1006007004053 Mg2+ binding site [ion binding]; other site 1006007004054 G-X-G motif; other site 1006007004055 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007004056 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007004057 DNA binding site [nucleotide binding] 1006007004058 domain linker motif; other site 1006007004059 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 1006007004060 dimerization interface [polypeptide binding]; other site 1006007004061 ligand binding site [chemical binding]; other site 1006007004062 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 1006007004063 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 1006007004064 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1006007004065 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1006007004066 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 1006007004067 dimer interface [polypeptide binding]; other site 1006007004068 conserved gate region; other site 1006007004069 putative PBP binding loops; other site 1006007004070 ABC-ATPase subunit interface; other site 1006007004071 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007004072 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007004073 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 1006007004074 putative substrate translocation pore; other site 1006007004075 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1006007004076 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1006007004077 iron-sulfur cluster [ion binding]; other site 1006007004078 [2Fe-2S] cluster binding site [ion binding]; other site 1006007004079 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1006007004080 hydrophobic ligand binding site; other site 1006007004081 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1006007004082 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1006007004083 Walker A/P-loop; other site 1006007004084 ATP binding site [chemical binding]; other site 1006007004085 Q-loop/lid; other site 1006007004086 ABC transporter signature motif; other site 1006007004087 Walker B; other site 1006007004088 D-loop; other site 1006007004089 H-loop/switch region; other site 1006007004090 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 1006007004091 ABC-ATPase subunit interface; other site 1006007004092 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1006007004093 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1006007004094 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 1006007004095 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1006007004096 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1006007004097 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1006007004098 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1006007004099 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1006007004100 active site 1006007004101 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1006007004102 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1006007004103 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1006007004104 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007004105 DNA-binding site [nucleotide binding]; DNA binding site 1006007004106 FCD domain; Region: FCD; pfam07729 1006007004107 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 1006007004108 D-cysteine desulfhydrase; Validated; Region: PRK03910 1006007004109 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 1006007004110 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1006007004111 catalytic residue [active] 1006007004112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007004113 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 1006007004114 dimerization interface [polypeptide binding]; other site 1006007004115 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 1006007004116 dimer interface [polypeptide binding]; other site 1006007004117 phosphorylation site [posttranslational modification] 1006007004118 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 1006007004119 ATP binding site [chemical binding]; other site 1006007004120 Mg2+ binding site [ion binding]; other site 1006007004121 G-X-G motif; other site 1006007004122 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007004123 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 1006007004124 active site 1006007004125 phosphorylation site [posttranslational modification] 1006007004126 intermolecular recognition site; other site 1006007004127 dimerization interface [polypeptide binding]; other site 1006007004128 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 1006007004129 DNA binding site [nucleotide binding] 1006007004130 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1006007004131 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 1006007004132 protein binding site [polypeptide binding]; other site 1006007004133 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 1006007004134 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1006007004135 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1006007004136 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 1006007004137 putative DNA binding site [nucleotide binding]; other site 1006007004138 putative Zn2+ binding site [ion binding]; other site 1006007004139 AsnC family; Region: AsnC_trans_reg; pfam01037 1006007004140 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1006007004141 TrkA-N domain; Region: TrkA_N; pfam02254 1006007004142 TrkA-C domain; Region: TrkA_C; pfam02080 1006007004143 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1006007004144 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1006007004145 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 1006007004146 TPR motif; other site 1006007004147 binding surface 1006007004148 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1006007004149 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1006007004150 agmatinase; Region: agmatinase; TIGR01230 1006007004151 Arginase family; Region: Arginase; cd09989 1006007004152 active site 1006007004153 Mn binding site [ion binding]; other site 1006007004154 oligomer interface [polypeptide binding]; other site 1006007004155 S-methylmethionine transporter; Provisional; Region: PRK11387 1006007004156 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1006007004157 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1006007004158 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1006007004159 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1006007004160 Spore germination protein; Region: Spore_permease; pfam03845 1006007004161 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1006007004162 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1006007004163 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 1006007004164 NodB motif; other site 1006007004165 active site 1006007004166 catalytic site [active] 1006007004167 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1006007004168 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007004169 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 1006007004170 DNA binding residues [nucleotide binding] 1006007004171 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1006007004172 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1006007004173 transcriptional regulator Hpr; Provisional; Region: PRK13777 1006007004174 MarR family; Region: MarR; pfam01047 1006007004175 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 1006007004176 heme-binding site [chemical binding]; other site 1006007004177 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1006007004178 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1006007004179 dimer interface [polypeptide binding]; other site 1006007004180 putative CheW interface [polypeptide binding]; other site 1006007004181 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007004182 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007004183 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007004184 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 1006007004185 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1006007004186 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 1006007004187 active site 1006007004188 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1006007004189 Cytochrome P450; Region: p450; cl12078 1006007004190 Predicted transcriptional regulators [Transcription]; Region: COG1733 1006007004191 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1006007004192 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1006007004193 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 1006007004194 substrate binding site [chemical binding]; other site 1006007004195 oxyanion hole (OAH) forming residues; other site 1006007004196 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1006007004197 Part of AAA domain; Region: AAA_19; pfam13245 1006007004198 Family description; Region: UvrD_C_2; pfam13538 1006007004199 CAAX protease self-immunity; Region: Abi; pfam02517 1006007004200 Competence protein J (ComJ); Region: ComJ; pfam11033 1006007004201 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 1006007004202 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 1006007004203 putative homodimer interface [polypeptide binding]; other site 1006007004204 putative homotetramer interface [polypeptide binding]; other site 1006007004205 putative metal binding site [ion binding]; other site 1006007004206 putative homodimer-homodimer interface [polypeptide binding]; other site 1006007004207 putative allosteric switch controlling residues; other site 1006007004208 Predicted membrane protein [Function unknown]; Region: COG1289 1006007004209 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1006007004210 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1006007004211 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 1006007004212 substrate binding pocket [chemical binding]; other site 1006007004213 substrate-Mg2+ binding site; other site 1006007004214 aspartate-rich region 1; other site 1006007004215 aspartate-rich region 2; other site 1006007004216 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007004217 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 1006007004218 active site 1006007004219 phosphorylation site [posttranslational modification] 1006007004220 intermolecular recognition site; other site 1006007004221 dimerization interface [polypeptide binding]; other site 1006007004222 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 1006007004223 DNA binding site [nucleotide binding] 1006007004224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007004225 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 1006007004226 dimer interface [polypeptide binding]; other site 1006007004227 phosphorylation site [posttranslational modification] 1006007004228 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 1006007004229 ATP binding site [chemical binding]; other site 1006007004230 Mg2+ binding site [ion binding]; other site 1006007004231 G-X-G motif; other site 1006007004232 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1006007004233 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1006007004234 Walker A/P-loop; other site 1006007004235 ATP binding site [chemical binding]; other site 1006007004236 Q-loop/lid; other site 1006007004237 ABC transporter signature motif; other site 1006007004238 Walker B; other site 1006007004239 D-loop; other site 1006007004240 H-loop/switch region; other site 1006007004241 FtsX-like permease family; Region: FtsX; pfam02687 1006007004242 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1006007004243 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1006007004244 active site 1006007004245 nucleophile elbow; other site 1006007004246 YtxH-like protein; Region: YtxH; cl02079 1006007004247 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1006007004248 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1006007004249 substrate binding [chemical binding]; other site 1006007004250 active site 1006007004251 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1006007004252 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 1006007004253 putative substrate translocation pore; other site 1006007004254 H+ Antiporter protein; Region: 2A0121; TIGR00900 1006007004255 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1006007004256 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007004257 DNA binding residues [nucleotide binding] 1006007004258 dimer interface [polypeptide binding]; other site 1006007004259 CAAX protease self-immunity; Region: Abi; pfam02517 1006007004260 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 1006007004261 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1006007004262 active site 1006007004263 catalytic tetrad [active] 1006007004264 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1006007004265 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1006007004266 DNA binding residues [nucleotide binding] 1006007004267 putative dimer interface [polypeptide binding]; other site 1006007004268 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1006007004269 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007004270 Coenzyme A binding pocket [chemical binding]; other site 1006007004271 metal-dependent hydrolase; Provisional; Region: PRK13291 1006007004272 DinB superfamily; Region: DinB_2; pfam12867 1006007004273 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 1006007004274 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1006007004275 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 1006007004276 active site 1006007004277 catalytic tetrad [active] 1006007004278 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1006007004279 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1006007004280 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1006007004281 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1006007004282 active site 1006007004283 Zn binding site [ion binding]; other site 1006007004284 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1006007004285 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 1006007004286 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 1006007004287 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1006007004288 S-adenosylmethionine binding site [chemical binding]; other site 1006007004289 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1006007004290 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1006007004291 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1006007004292 Protein of unknown function (DUF2413); Region: DUF2413; pfam10310 1006007004293 Ferritin-like domain; Region: Ferritin; pfam00210 1006007004294 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1006007004295 ferroxidase diiron center [ion binding]; other site 1006007004296 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 1006007004297 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1006007004298 DXD motif; other site 1006007004299 PgaD-like protein; Region: PgaD; cl14676 1006007004300 Putative catalytic polysaccharide deacetylase domain of bacterial intercellular adhesion protein IcaB and similar proteins; Region: CE4_IcaB_5s; cd10965 1006007004301 putative active site [active] 1006007004302 putative metal binding site [ion binding]; other site 1006007004303 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 1006007004304 PAS domain; Region: PAS_9; pfam13426 1006007004305 putative active site [active] 1006007004306 heme pocket [chemical binding]; other site 1006007004307 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1006007004308 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1006007004309 metal binding site [ion binding]; metal-binding site 1006007004310 active site 1006007004311 I-site; other site 1006007004312 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 1006007004313 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 1006007004314 stage II sporulation protein P; Region: spore_II_P; TIGR02867 1006007004315 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 1006007004316 dimer interface [polypeptide binding]; other site 1006007004317 putative metal binding site [ion binding]; other site 1006007004318 YcxB-like protein; Region: YcxB; pfam14317 1006007004319 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 1006007004320 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1006007004321 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 1006007004322 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 1006007004323 Glutamate binding site [chemical binding]; other site 1006007004324 homodimer interface [polypeptide binding]; other site 1006007004325 NAD binding site [chemical binding]; other site 1006007004326 catalytic residues [active] 1006007004327 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1006007004328 putative transport protein YifK; Provisional; Region: PRK10746 1006007004329 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 1006007004330 catalytic core [active] 1006007004331 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 1006007004332 DNA-binding site [nucleotide binding]; DNA binding site 1006007004333 RNA-binding motif; other site 1006007004334 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1006007004335 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007004336 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1006007004337 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007004338 MarR family; Region: MarR; pfam01047 1006007004339 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 1006007004340 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007004341 putative substrate translocation pore; other site 1006007004342 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007004343 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007004344 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007004345 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007004346 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007004347 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 1006007004348 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1006007004349 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007004350 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 1006007004351 DNA binding residues [nucleotide binding] 1006007004352 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1006007004353 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1006007004354 oligomer interface [polypeptide binding]; other site 1006007004355 active site residues [active] 1006007004356 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1006007004357 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1006007004358 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 1006007004359 Citrate transporter; Region: CitMHS; pfam03600 1006007004360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007004361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007004362 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007004363 dimerization interface [polypeptide binding]; other site 1006007004364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1006007004365 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1006007004366 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007004367 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 1006007004368 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1006007004369 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 1006007004370 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1006007004371 ligand binding site [chemical binding]; other site 1006007004372 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1006007004373 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1006007004374 Walker A/P-loop; other site 1006007004375 ATP binding site [chemical binding]; other site 1006007004376 Q-loop/lid; other site 1006007004377 ABC transporter signature motif; other site 1006007004378 Walker B; other site 1006007004379 D-loop; other site 1006007004380 H-loop/switch region; other site 1006007004381 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1006007004382 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1006007004383 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1006007004384 TM-ABC transporter signature motif; other site 1006007004385 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1006007004386 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1006007004387 TM-ABC transporter signature motif; other site 1006007004388 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1006007004389 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 1006007004390 Moco binding site; other site 1006007004391 metal coordination site [ion binding]; other site 1006007004392 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 1006007004393 MPT binding site; other site 1006007004394 trimer interface [polypeptide binding]; other site 1006007004395 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 1006007004396 trimer interface [polypeptide binding]; other site 1006007004397 dimer interface [polypeptide binding]; other site 1006007004398 putative active site [active] 1006007004399 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1006007004400 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 1006007004401 dimer interface [polypeptide binding]; other site 1006007004402 putative functional site; other site 1006007004403 putative MPT binding site; other site 1006007004404 YvrJ protein family; Region: YvrJ; pfam12841 1006007004405 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007004406 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007004407 Coenzyme A binding pocket [chemical binding]; other site 1006007004408 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 1006007004409 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007004410 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 1006007004411 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1006007004412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007004413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1006007004414 SPW repeat; Region: SPW; pfam03779 1006007004415 Domain of unknown function (DUF3973); Region: DUF3973; pfam13119 1006007004416 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 1006007004417 non-specific DNA binding site [nucleotide binding]; other site 1006007004418 sequence-specific DNA binding site [nucleotide binding]; other site 1006007004419 salt bridge; other site 1006007004420 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 1006007004421 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 1006007004422 Domain of unknown function DUF; Region: DUF204; pfam02659 1006007004423 Domain of unknown function (DUF4288); Region: DUF4288; pfam14119 1006007004424 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1006007004425 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 1006007004426 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1006007004427 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 1006007004428 metal-dependent hydrolase; Provisional; Region: PRK13291 1006007004429 DinB superfamily; Region: DinB_2; pfam12867 1006007004430 potential frameshift: common BLAST hit: gi|150392276|ref|YP_001322325.1| membrane protein 1006007004431 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1006007004432 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1006007004433 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 1006007004434 motif II; other site 1006007004435 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 1006007004436 non-specific DNA binding site [nucleotide binding]; other site 1006007004437 salt bridge; other site 1006007004438 sequence-specific DNA binding site [nucleotide binding]; other site 1006007004439 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 1006007004440 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007004441 putative substrate translocation pore; other site 1006007004442 maltose O-acetyltransferase; Provisional; Region: PRK10092 1006007004443 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 1006007004444 active site 1006007004445 substrate binding site [chemical binding]; other site 1006007004446 trimer interface [polypeptide binding]; other site 1006007004447 CoA binding site [chemical binding]; other site 1006007004448 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007004449 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007004450 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 1006007004451 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1006007004452 active site 1006007004453 catalytic tetrad [active] 1006007004454 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1006007004455 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1006007004456 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 1006007004457 NADP binding site [chemical binding]; other site 1006007004458 substrate binding site [chemical binding]; other site 1006007004459 active site 1006007004460 MFS transport protein AraJ; Provisional; Region: PRK10091 1006007004461 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 1006007004462 putative substrate translocation pore; other site 1006007004463 Uncharacterized conserved protein [Function unknown]; Region: COG4925 1006007004464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007004465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007004466 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007004467 dimerization interface [polypeptide binding]; other site 1006007004468 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007004469 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1006007004470 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 1006007004471 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1006007004472 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1006007004473 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1006007004474 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1006007004475 NAD binding site [chemical binding]; other site 1006007004476 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 1006007004477 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1006007004478 active site 1006007004479 homotetramer interface [polypeptide binding]; other site 1006007004480 homodimer interface [polypeptide binding]; other site 1006007004481 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 1006007004482 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1006007004483 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 1006007004484 putative active site [active] 1006007004485 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1006007004486 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 1006007004487 active site turn [active] 1006007004488 phosphorylation site [posttranslational modification] 1006007004489 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1006007004490 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1006007004491 HPr interaction site; other site 1006007004492 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1006007004493 active site 1006007004494 phosphorylation site [posttranslational modification] 1006007004495 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1006007004496 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 1006007004497 S-adenosylmethionine binding site [chemical binding]; other site 1006007004498 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1006007004499 Serine hydrolase; Region: Ser_hydrolase; cl17834 1006007004500 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1006007004501 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 1006007004502 substrate-cofactor binding pocket; other site 1006007004503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007004504 catalytic residue [active] 1006007004505 CAAX protease self-immunity; Region: Abi; pfam02517 1006007004506 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1006007004507 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 1006007004508 conserved cys residue [active] 1006007004509 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007004510 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007004511 Coenzyme A binding pocket [chemical binding]; other site 1006007004512 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1006007004513 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 1006007004514 active site 1006007004515 metal binding site [ion binding]; metal-binding site 1006007004516 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1006007004517 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007004518 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 1006007004519 DNA binding residues [nucleotide binding] 1006007004520 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 1006007004521 ChaB; Region: ChaB; pfam06150 1006007004522 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1006007004523 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 1006007004524 putative substrate translocation pore; other site 1006007004525 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 1006007004526 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1006007004527 putative substrate translocation pore; other site 1006007004528 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1006007004529 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 1006007004530 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1006007004531 Predicted membrane protein [Function unknown]; Region: COG2259 1006007004532 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1006007004533 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007004534 Zn binding site [ion binding]; other site 1006007004535 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1006007004536 Zn binding site [ion binding]; other site 1006007004537 Predicted flavoprotein [General function prediction only]; Region: COG0431 1006007004538 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1006007004539 Isochorismatase family; Region: Isochorismatase; pfam00857 1006007004540 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1006007004541 catalytic triad [active] 1006007004542 dimer interface [polypeptide binding]; other site 1006007004543 conserved cis-peptide bond; other site 1006007004544 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1006007004545 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1006007004546 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1006007004547 TAP-like protein; Region: Abhydrolase_4; pfam08386 1006007004548 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007004549 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 1006007004550 non-specific DNA binding site [nucleotide binding]; other site 1006007004551 salt bridge; other site 1006007004552 sequence-specific DNA binding site [nucleotide binding]; other site 1006007004553 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007004554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007004555 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007004556 dimerization interface [polypeptide binding]; other site 1006007004557 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1006007004558 active site 1 [active] 1006007004559 dimer interface [polypeptide binding]; other site 1006007004560 hexamer interface [polypeptide binding]; other site 1006007004561 active site 2 [active] 1006007004562 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 1006007004563 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007004564 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007004565 Predicted membrane protein [Function unknown]; Region: COG2311 1006007004566 Protein of unknown function (DUF418); Region: DUF418; cl12135 1006007004567 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1006007004568 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1006007004569 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1006007004570 Walker A/P-loop; other site 1006007004571 ATP binding site [chemical binding]; other site 1006007004572 Q-loop/lid; other site 1006007004573 ABC transporter signature motif; other site 1006007004574 Walker B; other site 1006007004575 D-loop; other site 1006007004576 H-loop/switch region; other site 1006007004577 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 1006007004578 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1006007004579 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1006007004580 potential frameshift: common BLAST hit: gi|154687900|ref|YP_001423061.1| two-component response regulator 1006007004581 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007004582 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 1006007004583 active site 1006007004584 phosphorylation site [posttranslational modification] 1006007004585 intermolecular recognition site; other site 1006007004586 dimerization interface [polypeptide binding]; other site 1006007004587 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007004588 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 1006007004589 DNA binding site [nucleotide binding] 1006007004590 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007004591 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 1006007004592 dimer interface [polypeptide binding]; other site 1006007004593 phosphorylation site [posttranslational modification] 1006007004594 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 1006007004595 ATP binding site [chemical binding]; other site 1006007004596 Mg2+ binding site [ion binding]; other site 1006007004597 G-X-G motif; other site 1006007004598 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007004599 Coenzyme A binding pocket [chemical binding]; other site 1006007004600 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1006007004601 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1006007004602 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 1006007004603 putative substrate translocation pore; other site 1006007004604 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1006007004605 active site 1006007004606 intersubunit interactions; other site 1006007004607 catalytic residue [active] 1006007004608 alpha-glucosidase; Provisional; Region: PRK10426 1006007004609 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 1006007004610 putative active site [active] 1006007004611 putative catalytic site [active] 1006007004612 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1006007004613 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1006007004614 substrate binding site [chemical binding]; other site 1006007004615 trimer interface [polypeptide binding]; other site 1006007004616 Mn binding site [ion binding]; other site 1006007004617 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1006007004618 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007004619 DNA-binding site [nucleotide binding]; DNA binding site 1006007004620 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1006007004621 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1006007004622 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 1006007004623 NAD(P) binding site [chemical binding]; other site 1006007004624 catalytic residues [active] 1006007004625 Predicted permeases [General function prediction only]; Region: COG0679 1006007004626 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1006007004627 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1006007004628 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1006007004629 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1006007004630 trimer interface [polypeptide binding]; other site 1006007004631 active site 1006007004632 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1006007004633 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1006007004634 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1006007004635 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1006007004636 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1006007004637 trimerization site [polypeptide binding]; other site 1006007004638 active site 1006007004639 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; cl00162 1006007004640 HPr interaction site; other site 1006007004641 active site 1006007004642 phosphorylation site [posttranslational modification] 1006007004643 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1006007004644 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1006007004645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007004646 NAD(P) binding site [chemical binding]; other site 1006007004647 active site 1006007004648 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007004649 potential frameshift: common BLAST hit: gi|375361212|ref|YP_005129251.1| Multidrug-efflux transporter 2 regulator 1006007004650 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1006007004651 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1006007004652 DNA binding residues [nucleotide binding] 1006007004653 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 1006007004654 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007004655 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007004656 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1006007004657 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 1006007004658 conserved cys residue [active] 1006007004659 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 1006007004660 conserved cis-peptide bond; other site 1006007004661 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007004662 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1006007004663 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 1006007004664 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007004665 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1006007004666 Walker A/P-loop; other site 1006007004667 ATP binding site [chemical binding]; other site 1006007004668 Q-loop/lid; other site 1006007004669 ABC transporter signature motif; other site 1006007004670 Walker B; other site 1006007004671 D-loop; other site 1006007004672 H-loop/switch region; other site 1006007004673 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1006007004674 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007004675 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007004676 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1006007004677 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1006007004678 spermidine synthase; Provisional; Region: PRK00811 1006007004679 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 1006007004680 S-adenosylmethionine binding site [chemical binding]; other site 1006007004681 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 1006007004682 Protein of unknown function (DUF422); Region: DUF422; cl00991 1006007004683 PAS domain; Region: PAS; smart00091 1006007004684 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1006007004685 putative active site [active] 1006007004686 heme pocket [chemical binding]; other site 1006007004687 PAS domain; Region: PAS; smart00091 1006007004688 putative active site [active] 1006007004689 heme pocket [chemical binding]; other site 1006007004690 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 1006007004691 Walker A motif; other site 1006007004692 ATP binding site [chemical binding]; other site 1006007004693 Walker B motif; other site 1006007004694 arginine finger; other site 1006007004695 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1006007004696 Amidase; Region: Amidase; pfam01425 1006007004697 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1006007004698 Aspartase; Region: Aspartase; cd01357 1006007004699 active sites [active] 1006007004700 tetramer interface [polypeptide binding]; other site 1006007004701 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1006007004702 aspartate racemase; Region: asp_race; TIGR00035 1006007004703 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1006007004704 Predicted transcriptional regulators [Transcription]; Region: COG1733 1006007004705 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1006007004706 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007004707 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1006007004708 active site 1006007004709 metal binding site [ion binding]; metal-binding site 1006007004710 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1006007004711 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1006007004712 NAD(P) binding site [chemical binding]; other site 1006007004713 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 1006007004714 DNA-binding site [nucleotide binding]; DNA binding site 1006007004715 RNA-binding motif; other site 1006007004716 Cold-inducible protein YdjO; Region: YdjO; pfam14169 1006007004717 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 1006007004718 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007004719 putative substrate translocation pore; other site 1006007004720 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 1006007004721 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1006007004722 hypothetical protein; Provisional; Region: PRK07236 1006007004723 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1006007004724 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007004725 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007004726 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1006007004727 DinB family; Region: DinB; cl17821 1006007004728 DinB superfamily; Region: DinB_2; pfam12867 1006007004729 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 1006007004730 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1006007004731 Peptidase family M23; Region: Peptidase_M23; pfam01551 1006007004732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 1006007004733 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 1006007004734 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1006007004735 Uncharacterized conserved protein [Function unknown]; Region: COG5646 1006007004736 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1006007004737 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1006007004738 active site 1006007004739 hypothetical protein; Provisional; Region: PRK07758 1006007004740 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 1006007004741 binding surface 1006007004742 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1006007004743 TPR motif; other site 1006007004744 Tetratrico peptide repeat; Region: TPR_5; pfam12688 1006007004745 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 1006007004746 binding surface 1006007004747 TPR motif; other site 1006007004748 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1006007004749 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1006007004750 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1006007004751 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1006007004752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1006007004753 MOSC domain; Region: MOSC; pfam03473 1006007004754 3-alpha domain; Region: 3-alpha; pfam03475 1006007004755 Bacterial SH3 domain; Region: SH3_3; cl17532 1006007004756 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007004757 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007004758 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1006007004759 EamA-like transporter family; Region: EamA; pfam00892 1006007004760 EamA-like transporter family; Region: EamA; pfam00892 1006007004761 Protein of unknown function (DUF975); Region: DUF975; pfam06161 1006007004762 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 1006007004763 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1006007004764 putative dimer interface [polypeptide binding]; other site 1006007004765 catalytic triad [active] 1006007004766 RNA polymerase factor sigma-70; Validated; Region: PRK06811 1006007004767 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007004768 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1006007004769 DNA binding residues [nucleotide binding] 1006007004770 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 1006007004771 potential frameshift: common BLAST hit: gi|294500312|ref|YP_003564012.1| MarR family transcriptional regulator 1006007004772 MarR family; Region: MarR; pfam01047 1006007004773 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007004774 YtkA-like; Region: YtkA; pfam13115 1006007004775 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1006007004776 dimer interface [polypeptide binding]; other site 1006007004777 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007004778 metal binding site [ion binding]; metal-binding site 1006007004779 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1006007004780 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1006007004781 FeoA domain; Region: FeoA; pfam04023 1006007004782 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 1006007004783 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1006007004784 G1 box; other site 1006007004785 GTP/Mg2+ binding site [chemical binding]; other site 1006007004786 Switch I region; other site 1006007004787 G2 box; other site 1006007004788 G3 box; other site 1006007004789 Switch II region; other site 1006007004790 G4 box; other site 1006007004791 G5 box; other site 1006007004792 YtkA-like; Region: YtkA; pfam13115 1006007004793 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1006007004794 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1006007004795 Zn2+ binding site [ion binding]; other site 1006007004796 Mg2+ binding site [ion binding]; other site 1006007004797 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007004798 DNA-binding site [nucleotide binding]; DNA binding site 1006007004799 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007004800 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 1006007004801 putative dimerization interface [polypeptide binding]; other site 1006007004802 putative ligand binding site [chemical binding]; other site 1006007004803 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1006007004804 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1006007004805 putative N- and C-terminal domain interface [polypeptide binding]; other site 1006007004806 putative active site [active] 1006007004807 MgATP binding site [chemical binding]; other site 1006007004808 catalytic site [active] 1006007004809 metal binding site [ion binding]; metal-binding site 1006007004810 putative carbohydrate binding site [chemical binding]; other site 1006007004811 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1006007004812 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 1006007004813 intersubunit interface [polypeptide binding]; other site 1006007004814 active site 1006007004815 Zn2+ binding site [ion binding]; other site 1006007004816 L-arabinose isomerase; Provisional; Region: PRK02929 1006007004817 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1006007004818 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1006007004819 trimer interface [polypeptide binding]; other site 1006007004820 substrate binding site [chemical binding]; other site 1006007004821 Mn binding site [ion binding]; other site 1006007004822 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 1006007004823 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1006007004824 putative substrate translocation pore; other site 1006007004825 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 1006007004826 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1006007004827 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1006007004828 active site 1006007004829 metal binding site [ion binding]; metal-binding site 1006007004830 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1006007004831 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 1006007004832 THF binding site; other site 1006007004833 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 1006007004834 substrate binding site [chemical binding]; other site 1006007004835 THF binding site; other site 1006007004836 zinc-binding site [ion binding]; other site 1006007004837 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 1006007004838 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007004839 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007004840 Coenzyme A binding pocket [chemical binding]; other site 1006007004841 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007004842 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 1006007004843 non-specific DNA binding site [nucleotide binding]; other site 1006007004844 salt bridge; other site 1006007004845 sequence-specific DNA binding site [nucleotide binding]; other site 1006007004846 POT family; Region: PTR2; cl17359 1006007004847 LysE type translocator; Region: LysE; cl00565 1006007004848 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1006007004849 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1006007004850 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 1006007004851 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1006007004852 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1006007004853 dimerization interface [polypeptide binding]; other site 1006007004854 ligand binding site [chemical binding]; other site 1006007004855 NADP binding site [chemical binding]; other site 1006007004856 catalytic site [active] 1006007004857 Protein of unknown function (DUF3953); Region: DUF3953; pfam13129 1006007004858 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1006007004859 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 1006007004860 active site 1006007004861 motif I; other site 1006007004862 motif II; other site 1006007004863 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1006007004864 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1006007004865 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1006007004866 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1006007004867 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1006007004868 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1006007004869 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007004870 Coenzyme A binding pocket [chemical binding]; other site 1006007004871 CAAX protease self-immunity; Region: Abi; cl00558 1006007004872 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1006007004873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007004874 DNA-binding site [nucleotide binding]; DNA binding site 1006007004875 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1006007004876 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1006007004877 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1006007004878 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1006007004879 active site 1006007004880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007004881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007004882 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007004883 dimerization interface [polypeptide binding]; other site 1006007004884 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1006007004885 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1006007004886 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 1006007004887 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 1006007004888 active site 1006007004889 dimer interface [polypeptide binding]; other site 1006007004890 non-prolyl cis peptide bond; other site 1006007004891 insertion regions; other site 1006007004892 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1006007004893 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 1006007004894 dimer interface [polypeptide binding]; other site 1006007004895 conserved gate region; other site 1006007004896 putative PBP binding loops; other site 1006007004897 ABC-ATPase subunit interface; other site 1006007004898 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1006007004899 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007004900 Walker A/P-loop; other site 1006007004901 ATP binding site [chemical binding]; other site 1006007004902 Q-loop/lid; other site 1006007004903 ABC transporter signature motif; other site 1006007004904 Walker B; other site 1006007004905 D-loop; other site 1006007004906 H-loop/switch region; other site 1006007004907 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1006007004908 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 1006007004909 substrate binding site [chemical binding]; other site 1006007004910 oxyanion hole (OAH) forming residues; other site 1006007004911 trimer interface [polypeptide binding]; other site 1006007004912 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1006007004913 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 1006007004914 substrate binding pocket [chemical binding]; other site 1006007004915 membrane-bound complex binding site; other site 1006007004916 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1006007004917 NMT1/THI5 like; Region: NMT1; pfam09084 1006007004918 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 1006007004919 membrane-bound complex binding site; other site 1006007004920 hinge residues; other site 1006007004921 hypothetical protein; Provisional; Region: PRK06208 1006007004922 intersubunit interface [polypeptide binding]; other site 1006007004923 active site 1006007004924 Zn2+ binding site [ion binding]; other site 1006007004925 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1006007004926 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 1006007004927 substrate binding pocket [chemical binding]; other site 1006007004928 membrane-bound complex binding site; other site 1006007004929 hinge residues; other site 1006007004930 Spore germination protein; Region: Spore_permease; pfam03845 1006007004931 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007004932 Coenzyme A binding pocket [chemical binding]; other site 1006007004933 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 1006007004934 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 1006007004935 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1006007004936 active site 1006007004937 Zn binding site [ion binding]; other site 1006007004938 Heat induced stress protein YflT; Region: YflT; pfam11181 1006007004939 short chain dehydrogenase; Provisional; Region: PRK06701 1006007004940 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1006007004941 NAD binding site [chemical binding]; other site 1006007004942 metal binding site [ion binding]; metal-binding site 1006007004943 active site 1006007004944 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007004945 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1006007004946 Escherichia coli CorA-Salmonella typhimurium ZntB_like family; Region: EcCorA_ZntB-like; cd12821 1006007004947 Cl binding site [ion binding]; other site 1006007004948 oligomer interface [polypeptide binding]; other site 1006007004949 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 1006007004950 dimerization interface [polypeptide binding]; other site 1006007004951 putative active cleft [active] 1006007004952 Bacterial SH3 domain; Region: SH3_3; pfam08239 1006007004953 Bacterial SH3 domain; Region: SH3_3; pfam08239 1006007004954 Bacterial SH3 domain; Region: SH3_3; pfam08239 1006007004955 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1006007004956 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1006007004957 PAS fold; Region: PAS_4; pfam08448 1006007004958 PAS domain S-box; Region: sensory_box; TIGR00229 1006007004959 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 1006007004960 putative active site [active] 1006007004961 heme pocket [chemical binding]; other site 1006007004962 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 1006007004963 PAS domain; Region: PAS_9; pfam13426 1006007004964 putative active site [active] 1006007004965 heme pocket [chemical binding]; other site 1006007004966 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1006007004967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1006007004968 metal binding site [ion binding]; metal-binding site 1006007004969 active site 1006007004970 I-site; other site 1006007004971 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1006007004972 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1006007004973 dimer interface [polypeptide binding]; other site 1006007004974 putative CheW interface [polypeptide binding]; other site 1006007004975 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 1006007004976 DNA-binding site [nucleotide binding]; DNA binding site 1006007004977 RNA-binding motif; other site 1006007004978 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007004979 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1006007004980 putative protofilament interface [polypeptide binding]; other site 1006007004981 nucleotide binding site [chemical binding]; other site 1006007004982 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1006007004983 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1006007004984 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1006007004985 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1006007004986 DNA binding residues [nucleotide binding] 1006007004987 putative dimer interface [polypeptide binding]; other site 1006007004988 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1006007004989 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1006007004990 putative NAD(P) binding site [chemical binding]; other site 1006007004991 putative substrate binding site [chemical binding]; other site 1006007004992 catalytic Zn binding site [ion binding]; other site 1006007004993 structural Zn binding site [ion binding]; other site 1006007004994 dimer interface [polypeptide binding]; other site 1006007004995 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 1006007004996 dimerization domain swap beta strand [polypeptide binding]; other site 1006007004997 regulatory protein interface [polypeptide binding]; other site 1006007004998 active site 1006007004999 regulatory phosphorylation site [posttranslational modification]; other site 1006007005000 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1006007005001 active site 1006007005002 NTP binding site [chemical binding]; other site 1006007005003 metal binding triad [ion binding]; metal-binding site 1006007005004 antibiotic binding site [chemical binding]; other site 1006007005005 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1006007005006 classical (c) SDRs; Region: SDR_c; cd05233 1006007005007 NAD(P) binding site [chemical binding]; other site 1006007005008 active site 1006007005009 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007005010 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007005011 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 1006007005012 dimerization interface [polypeptide binding]; other site 1006007005013 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007005014 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007005015 Coenzyme A binding pocket [chemical binding]; other site 1006007005016 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 1006007005017 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1006007005018 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1006007005019 Walker A/P-loop; other site 1006007005020 ATP binding site [chemical binding]; other site 1006007005021 Q-loop/lid; other site 1006007005022 ABC transporter signature motif; other site 1006007005023 Walker B; other site 1006007005024 D-loop; other site 1006007005025 H-loop/switch region; other site 1006007005026 Pleiotropic Drug Resistance (PDR) Family protein; Region: 3a01205; TIGR00956 1006007005027 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1006007005028 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007005029 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 1006007005030 active site 1006007005031 phosphorylation site [posttranslational modification] 1006007005032 intermolecular recognition site; other site 1006007005033 dimerization interface [polypeptide binding]; other site 1006007005034 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 1006007005035 DNA binding site [nucleotide binding] 1006007005036 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007005037 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 1006007005038 dimerization interface [polypeptide binding]; other site 1006007005039 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 1006007005040 dimer interface [polypeptide binding]; other site 1006007005041 phosphorylation site [posttranslational modification] 1006007005042 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 1006007005043 ATP binding site [chemical binding]; other site 1006007005044 Mg2+ binding site [ion binding]; other site 1006007005045 G-X-G motif; other site 1006007005046 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1006007005047 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 1006007005048 active site 1006007005049 catalytic triad [active] 1006007005050 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1006007005051 catalytic residues [active] 1006007005052 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1006007005053 Erythromycin esterase; Region: Erythro_esteras; cl17110 1006007005054 Cupin domain; Region: Cupin_2; cl17218 1006007005055 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 1006007005056 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1006007005057 active site 1006007005058 motif I; other site 1006007005059 motif II; other site 1006007005060 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 1006007005061 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1006007005062 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007005063 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 1006007005064 DNA binding residues [nucleotide binding] 1006007005065 lineage-specific thermal regulator protein; Provisional; Region: lstR; PRK09416 1006007005066 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007005067 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1006007005068 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 1006007005069 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1006007005070 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1006007005071 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1006007005072 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1006007005073 Walker A/P-loop; other site 1006007005074 ATP binding site [chemical binding]; other site 1006007005075 Q-loop/lid; other site 1006007005076 ABC transporter signature motif; other site 1006007005077 Walker B; other site 1006007005078 D-loop; other site 1006007005079 H-loop/switch region; other site 1006007005080 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 1006007005081 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1006007005082 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1006007005083 nucleotide binding site [chemical binding]; other site 1006007005084 Glucuronate isomerase; Region: UxaC; pfam02614 1006007005085 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1006007005086 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 1006007005087 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1006007005088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007005089 NAD(P) binding site [chemical binding]; other site 1006007005090 active site 1006007005091 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1006007005092 Ligand Binding Site [chemical binding]; other site 1006007005093 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 1006007005094 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 1006007005095 AIR carboxylase; Region: AIRC; smart01001 1006007005096 hypothetical protein; Provisional; Region: PRK04194 1006007005097 Protein of unknown function DUF111; Region: DUF111; cl03398 1006007005098 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1006007005099 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 1006007005100 putative substrate translocation pore; other site 1006007005101 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1006007005102 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1006007005103 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 1006007005104 putative active site [active] 1006007005105 putative catalytic site [active] 1006007005106 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1006007005107 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1006007005108 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 1006007005109 active site 1006007005110 substrate binding pocket [chemical binding]; other site 1006007005111 homodimer interaction site [polypeptide binding]; other site 1006007005112 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 1006007005113 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007005114 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 1006007005115 sequence-specific DNA binding site [nucleotide binding]; other site 1006007005116 salt bridge; other site 1006007005117 CAAX protease self-immunity; Region: Abi; pfam02517 1006007005118 short chain dehydrogenase; Provisional; Region: PRK06172 1006007005119 classical (c) SDRs; Region: SDR_c; cd05233 1006007005120 NAD(P) binding site [chemical binding]; other site 1006007005121 active site 1006007005122 threonine synthase; Validated; Region: PRK08197 1006007005123 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 1006007005124 homodimer interface [polypeptide binding]; other site 1006007005125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007005126 catalytic residue [active] 1006007005127 proline/glycine betaine transporter; Provisional; Region: PRK10642 1006007005128 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 1006007005129 putative substrate translocation pore; other site 1006007005130 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 1006007005131 DNA-binding site [nucleotide binding]; DNA binding site 1006007005132 RNA-binding motif; other site 1006007005133 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 1006007005134 DNA-binding site [nucleotide binding]; DNA binding site 1006007005135 RNA-binding motif; other site 1006007005136 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007005137 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007005138 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007005139 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007005140 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 1006007005141 Protein of unknown function DUF45; Region: DUF45; pfam01863 1006007005142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1006007005143 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1006007005144 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1006007005145 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 1006007005146 conserved hypothetical protein; Region: TIGR02231 1006007005147 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1006007005148 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1006007005149 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1006007005150 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1006007005151 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1006007005152 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1006007005153 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1006007005154 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007005155 Zn binding site [ion binding]; other site 1006007005156 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 1006007005157 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007005158 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007005159 Coenzyme A binding pocket [chemical binding]; other site 1006007005160 azoreductase; Reviewed; Region: PRK00170 1006007005161 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1006007005162 azoreductase; Reviewed; Region: PRK00170 1006007005163 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1006007005164 Predicted transcriptional regulators [Transcription]; Region: COG1733 1006007005165 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1006007005166 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1006007005167 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1006007005168 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1006007005169 active site 1006007005170 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 1006007005171 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1006007005172 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1006007005173 NodB motif; other site 1006007005174 active site 1006007005175 catalytic site [active] 1006007005176 metal binding site [ion binding]; metal-binding site 1006007005177 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1006007005178 Repair protein; Region: Repair_PSII; pfam04536 1006007005179 Predicted membrane protein [Function unknown]; Region: COG4325 1006007005180 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1006007005181 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 1006007005182 NAD(P) binding site [chemical binding]; other site 1006007005183 catalytic residues [active] 1006007005184 Nitroreductase-like family 1. 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_1; cd02137 1006007005185 dimer interface [polypeptide binding]; other site 1006007005186 FMN binding site [chemical binding]; other site 1006007005187 glucose-1-dehydrogenase; Provisional; Region: PRK08936 1006007005188 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 1006007005189 NAD binding site [chemical binding]; other site 1006007005190 homodimer interface [polypeptide binding]; other site 1006007005191 active site 1006007005192 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 1006007005193 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1006007005194 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1006007005195 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1006007005196 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1006007005197 histidinol-phosphatase; Provisional; Region: PRK07328 1006007005198 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 1006007005199 active site 1006007005200 dimer interface [polypeptide binding]; other site 1006007005201 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007005202 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1006007005203 active site 1006007005204 metal binding site [ion binding]; metal-binding site 1006007005205 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007005206 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007005207 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007005208 dimerization interface [polypeptide binding]; other site 1006007005209 LysE type translocator; Region: LysE; cl00565 1006007005210 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 1006007005211 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1006007005212 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007005213 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007005214 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 1006007005215 putative dimerization interface [polypeptide binding]; other site 1006007005216 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007005217 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 1006007005218 DNA binding site [nucleotide binding] 1006007005219 active site 1006007005220 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1006007005221 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1006007005222 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 1006007005223 non-specific DNA binding site [nucleotide binding]; other site 1006007005224 salt bridge; other site 1006007005225 sequence-specific DNA binding site [nucleotide binding]; other site 1006007005226 Cupin domain; Region: Cupin_2; pfam07883 1006007005227 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1006007005228 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1006007005229 Excalibur calcium-binding domain; Region: Excalibur; cl05460 1006007005230 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 1006007005231 Na binding site [ion binding]; other site 1006007005232 substrate binding site [chemical binding]; other site 1006007005233 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1006007005234 beta-galactosidase; Region: BGL; TIGR03356 1006007005235 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1006007005236 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 1006007005237 active site turn [active] 1006007005238 phosphorylation site [posttranslational modification] 1006007005239 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1006007005240 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1006007005241 HPr interaction site; other site 1006007005242 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1006007005243 active site 1006007005244 phosphorylation site [posttranslational modification] 1006007005245 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1006007005246 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007005247 DNA-binding site [nucleotide binding]; DNA binding site 1006007005248 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1006007005249 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007005250 Coenzyme A binding pocket [chemical binding]; other site 1006007005251 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007005252 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1006007005253 EamA-like transporter family; Region: EamA; pfam00892 1006007005254 EamA-like transporter family; Region: EamA; pfam00892 1006007005255 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007005256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007005257 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007005258 dimerization interface [polypeptide binding]; other site 1006007005259 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 1006007005260 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1006007005261 NAD binding site [chemical binding]; other site 1006007005262 homotetramer interface [polypeptide binding]; other site 1006007005263 homodimer interface [polypeptide binding]; other site 1006007005264 substrate binding site [chemical binding]; other site 1006007005265 active site 1006007005266 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 1006007005267 putative homodimer interface [polypeptide binding]; other site 1006007005268 putative homotetramer interface [polypeptide binding]; other site 1006007005269 putative metal binding site [ion binding]; other site 1006007005270 putative homodimer-homodimer interface [polypeptide binding]; other site 1006007005271 putative allosteric switch controlling residues; other site 1006007005272 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1006007005273 CPxP motif; other site 1006007005274 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 1006007005275 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 1006007005276 active site residue [active] 1006007005277 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 1006007005278 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1006007005279 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007005280 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1006007005281 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 1006007005282 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007005283 homodimer interface [polypeptide binding]; other site 1006007005284 catalytic residue [active] 1006007005285 Dienelactone hydrolase family; Region: DLH; pfam01738 1006007005286 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007005287 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007005288 FtsX-like permease family; Region: FtsX; pfam02687 1006007005289 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1006007005290 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1006007005291 Walker A/P-loop; other site 1006007005292 ATP binding site [chemical binding]; other site 1006007005293 Q-loop/lid; other site 1006007005294 ABC transporter signature motif; other site 1006007005295 Walker B; other site 1006007005296 D-loop; other site 1006007005297 H-loop/switch region; other site 1006007005298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007005299 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; cl00080 1006007005300 dimer interface [polypeptide binding]; other site 1006007005301 phosphorylation site [posttranslational modification] 1006007005302 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 1006007005303 ATP binding site [chemical binding]; other site 1006007005304 Mg2+ binding site [ion binding]; other site 1006007005305 G-X-G motif; other site 1006007005306 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 1006007005307 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007005308 active site 1006007005309 phosphorylation site [posttranslational modification] 1006007005310 intermolecular recognition site; other site 1006007005311 dimerization interface [polypeptide binding]; other site 1006007005312 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 1006007005313 DNA binding site [nucleotide binding] 1006007005314 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1006007005315 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1006007005316 active site 1006007005317 non-prolyl cis peptide bond; other site 1006007005318 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1006007005319 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1006007005320 metal binding site [ion binding]; metal-binding site 1006007005321 dimer interface [polypeptide binding]; other site 1006007005322 potential frameshift: common BLAST hit: gi|294500078|ref|YP_003563778.1| GNAT family acetyltransferase 1006007005323 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007005324 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007005325 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1006007005326 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1006007005327 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1006007005328 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1006007005329 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1006007005330 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1006007005331 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1006007005332 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1006007005333 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1006007005334 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1006007005335 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1006007005336 PhnA protein; Region: PhnA; pfam03831 1006007005337 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1006007005338 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1006007005339 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007005340 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007005341 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 1006007005342 putative dimerization interface [polypeptide binding]; other site 1006007005343 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 1006007005344 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007005345 putative substrate translocation pore; other site 1006007005346 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 1006007005347 hypothetical protein; Validated; Region: PRK00068 1006007005348 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 1006007005349 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 1006007005350 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 1006007005351 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 1006007005352 Walker A motif; other site 1006007005353 ATP binding site [chemical binding]; other site 1006007005354 Walker B motif; other site 1006007005355 arginine finger; other site 1006007005356 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 1006007005357 Gas vesicle protein G; Region: GvpG; pfam05120 1006007005358 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 1006007005359 Gas vesicle protein; Region: Gas_vesicle; pfam00741 1006007005360 Gas vesicle protein K; Region: GvpK; pfam05121 1006007005361 Gas vesicle protein; Region: Gas_vesicle; pfam00741 1006007005362 potential frameshift: common BLAST hit: gi|294500044|ref|YP_003563744.1| integral membrane protein 1006007005363 EamA-like transporter family; Region: EamA; pfam00892 1006007005364 Xylosyltransferase C terminal; Region: Xylo_C; pfam12529 1006007005365 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 1006007005366 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1006007005367 active site 1006007005368 catalytic tetrad [active] 1006007005369 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1006007005370 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1006007005371 DNA binding residues [nucleotide binding] 1006007005372 putative dimer interface [polypeptide binding]; other site 1006007005373 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1006007005374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007005375 Coenzyme A binding pocket [chemical binding]; other site 1006007005376 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1006007005377 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1006007005378 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007005379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007005380 GAF domain; Region: GAF; pfam01590 1006007005381 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1006007005382 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 1006007005383 phosphorylation site [posttranslational modification] 1006007005384 dimer interface [polypeptide binding]; other site 1006007005385 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 1006007005386 ATP binding site [chemical binding]; other site 1006007005387 Mg2+ binding site [ion binding]; other site 1006007005388 G-X-G motif; other site 1006007005389 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1006007005390 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1006007005391 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007005392 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 1006007005393 active site 1006007005394 phosphorylation site [posttranslational modification] 1006007005395 intermolecular recognition site; other site 1006007005396 dimerization interface [polypeptide binding]; other site 1006007005397 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 1006007005398 DNA binding site [nucleotide binding] 1006007005399 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 1006007005400 dimerization interface [polypeptide binding]; other site 1006007005401 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 1006007005402 dimer interface [polypeptide binding]; other site 1006007005403 phosphorylation site [posttranslational modification] 1006007005404 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 1006007005405 ATP binding site [chemical binding]; other site 1006007005406 Mg2+ binding site [ion binding]; other site 1006007005407 G-X-G motif; other site 1006007005408 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1006007005409 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1006007005410 FtsX-like permease family; Region: FtsX; pfam02687 1006007005411 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1006007005412 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1006007005413 Walker A/P-loop; other site 1006007005414 ATP binding site [chemical binding]; other site 1006007005415 Q-loop/lid; other site 1006007005416 ABC transporter signature motif; other site 1006007005417 Walker B; other site 1006007005418 D-loop; other site 1006007005419 H-loop/switch region; other site 1006007005420 shikimate kinase; Provisional; Region: PRK13947 1006007005421 AAA domain; Region: AAA_17; pfam13207 1006007005422 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007005423 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1006007005424 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007005425 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1006007005426 GAF domain; Region: GAF; pfam01590 1006007005427 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007005428 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1006007005429 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1006007005430 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1006007005431 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1006007005432 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 1006007005433 TPP-binding site [chemical binding]; other site 1006007005434 dimer interface [polypeptide binding]; other site 1006007005435 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 1006007005436 PYR/PP interface [polypeptide binding]; other site 1006007005437 dimer interface [polypeptide binding]; other site 1006007005438 TPP binding site [chemical binding]; other site 1006007005439 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1006007005440 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1006007005441 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1006007005442 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1006007005443 active site 1006007005444 intersubunit interactions; other site 1006007005445 catalytic residue [active] 1006007005446 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007005447 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007005448 Coenzyme A binding pocket [chemical binding]; other site 1006007005449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007005450 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1006007005451 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 1006007005452 homodimer interface [polypeptide binding]; other site 1006007005453 active site 1006007005454 TDP-binding site; other site 1006007005455 acceptor substrate-binding pocket; other site 1006007005456 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007005457 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007005458 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 1006007005459 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 1006007005460 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 1006007005461 YtkA-like; Region: YtkA; pfam13115 1006007005462 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1006007005463 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1006007005464 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1006007005465 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1006007005466 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1006007005467 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 1006007005468 active site 1006007005469 phosphorylation site [posttranslational modification] 1006007005470 intermolecular recognition site; other site 1006007005471 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 1006007005472 DNA binding residues [nucleotide binding] 1006007005473 dimerization interface [polypeptide binding]; other site 1006007005474 Histidine kinase; Region: HisKA_3; pfam07730 1006007005475 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 1006007005476 ATP binding site [chemical binding]; other site 1006007005477 Mg2+ binding site [ion binding]; other site 1006007005478 G-X-G motif; other site 1006007005479 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1006007005480 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1006007005481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007005482 LysE type translocator; Region: LysE; cl00565 1006007005483 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 1006007005484 CotJB protein; Region: CotJB; pfam12652 1006007005485 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1006007005486 dimanganese center [ion binding]; other site 1006007005487 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007005488 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007005489 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1006007005490 Cytochrome P450; Region: p450; pfam00067 1006007005491 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1006007005492 Flavodoxin; Region: Flavodoxin_1; pfam00258 1006007005493 These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine...; Region: bifunctional_CYPOR; cd06206 1006007005494 FAD binding pocket [chemical binding]; other site 1006007005495 FAD binding motif [chemical binding]; other site 1006007005496 catalytic residues [active] 1006007005497 NAD binding pocket [chemical binding]; other site 1006007005498 phosphate binding motif [ion binding]; other site 1006007005499 beta-alpha-beta structure motif; other site 1006007005500 Predicted transcriptional regulator [Transcription]; Region: COG2378 1006007005501 HTH domain; Region: HTH_11; pfam08279 1006007005502 WYL domain; Region: WYL; pfam13280 1006007005503 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1006007005504 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 1006007005505 folate binding site [chemical binding]; other site 1006007005506 NADP+ binding site [chemical binding]; other site 1006007005507 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1006007005508 Gas vesicle protein; Region: Gas_vesicle; pfam00741 1006007005509 Gas vesicle protein K; Region: GvpK; pfam05121 1006007005510 Gas vesicle protein; Region: Gas_vesicle; cl02954 1006007005511 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 1006007005512 Gas vesicle protein G; Region: GvpG; pfam05120 1006007005513 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 1006007005514 Gas vesicle synthesis protein GvpO; Region: GvpO; pfam05800 1006007005515 gas vesicle synthesis protein GvpA; Provisional; Region: PRK09371 1006007005516 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 1006007005517 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1006007005518 FeS/SAM binding site; other site 1006007005519 SnoaL-like domain; Region: SnoaL_2; pfam12680 1006007005520 Predicted transcriptional regulator [Transcription]; Region: COG1959 1006007005521 Transcriptional regulator; Region: Rrf2; pfam02082 1006007005522 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007005523 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007005524 DNA binding site [nucleotide binding] 1006007005525 domain linker motif; other site 1006007005526 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 1006007005527 dimerization interface [polypeptide binding]; other site 1006007005528 ligand binding site [chemical binding]; other site 1006007005529 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1006007005530 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1006007005531 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 1006007005532 non-specific DNA binding site [nucleotide binding]; other site 1006007005533 salt bridge; other site 1006007005534 sequence-specific DNA binding site [nucleotide binding]; other site 1006007005535 Cupin domain; Region: Cupin_2; pfam07883 1006007005536 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1006007005537 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1006007005538 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 1006007005539 MutS domain III; Region: MutS_III; pfam05192 1006007005540 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007005541 Walker A/P-loop; other site 1006007005542 ATP binding site [chemical binding]; other site 1006007005543 Q-loop/lid; other site 1006007005544 ABC transporter signature motif; other site 1006007005545 Walker B; other site 1006007005546 D-loop; other site 1006007005547 H-loop/switch region; other site 1006007005548 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 1006007005549 Protein of unknown function (DUF975); Region: DUF975; cl10504 1006007005550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 1006007005551 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1006007005552 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 1006007005553 Catalytic site [active] 1006007005554 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 1006007005555 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1006007005556 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1006007005557 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007005558 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007005559 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1006007005560 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1006007005561 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 1006007005562 ABC-ATPase subunit interface; other site 1006007005563 dimer interface [polypeptide binding]; other site 1006007005564 putative PBP binding regions; other site 1006007005565 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1006007005566 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 1006007005567 ABC-ATPase subunit interface; other site 1006007005568 dimer interface [polypeptide binding]; other site 1006007005569 putative PBP binding regions; other site 1006007005570 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1006007005571 Protease prsW family; Region: PrsW-protease; cl15823 1006007005572 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1006007005573 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1006007005574 NAD binding site [chemical binding]; other site 1006007005575 substrate binding site [chemical binding]; other site 1006007005576 putative active site [active] 1006007005577 Predicted membrane protein [Function unknown]; Region: COG2323 1006007005578 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 1006007005579 DNA-binding site [nucleotide binding]; DNA binding site 1006007005580 RNA-binding motif; other site 1006007005581 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1006007005582 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1006007005583 G1 box; other site 1006007005584 putative GEF interaction site [polypeptide binding]; other site 1006007005585 GTP/Mg2+ binding site [chemical binding]; other site 1006007005586 Switch I region; other site 1006007005587 G2 box; other site 1006007005588 G3 box; other site 1006007005589 Switch II region; other site 1006007005590 G4 box; other site 1006007005591 G5 box; other site 1006007005592 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 1006007005593 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1006007005594 Protein of unknown function (DUF867); Region: DUF867; pfam05908 1006007005595 hypothetical protein; Validated; Region: PRK06769 1006007005596 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 1006007005597 active site 1006007005598 motif I; other site 1006007005599 motif II; other site 1006007005600 Divergent AAA domain; Region: AAA_4; pfam04326 1006007005601 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 1006007005602 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 1006007005603 YvrJ protein family; Region: YvrJ; pfam12841 1006007005604 Penicillinase repressor; Region: Pencillinase_R; cl17580 1006007005605 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1006007005606 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 1006007005607 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1006007005608 Thioredoxin; Region: Thioredoxin_4; pfam13462 1006007005609 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1006007005610 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 1006007005611 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1006007005612 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007005613 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007005614 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007005615 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007005616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1006007005617 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1006007005618 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1006007005619 NAD(P) binding site [chemical binding]; other site 1006007005620 substrate binding site [chemical binding]; other site 1006007005621 dimer interface [polypeptide binding]; other site 1006007005622 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007005623 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007005624 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 1006007005625 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007005626 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007005627 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1006007005628 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 1006007005629 active site 1006007005630 catalytic site [active] 1006007005631 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 1006007005632 catalytic residues [active] 1006007005633 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1006007005634 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1006007005635 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007005636 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 1006007005637 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 1006007005638 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1006007005639 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 1006007005640 S-adenosylmethionine binding site [chemical binding]; other site 1006007005641 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1006007005642 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 1006007005643 metal-binding site [ion binding] 1006007005644 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1006007005645 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1006007005646 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 1006007005647 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 1006007005648 dimerization interface [polypeptide binding]; other site 1006007005649 putative DNA binding site [nucleotide binding]; other site 1006007005650 putative Zn2+ binding site [ion binding]; other site 1006007005651 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1006007005652 putative active site [active] 1006007005653 heme pocket [chemical binding]; other site 1006007005654 WYL domain; Region: WYL; cl14852 1006007005655 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 1006007005656 active site residue [active] 1006007005657 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 1006007005658 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1006007005659 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1006007005660 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1006007005661 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 1006007005662 D-pathway; other site 1006007005663 Putative ubiquinol binding site [chemical binding]; other site 1006007005664 Low-spin heme (heme b) binding site [chemical binding]; other site 1006007005665 Putative water exit pathway; other site 1006007005666 Binuclear center (heme o3/CuB) [ion binding]; other site 1006007005667 K-pathway; other site 1006007005668 Putative proton exit pathway; other site 1006007005669 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 1006007005670 Subunit I/III interface [polypeptide binding]; other site 1006007005671 Subunit III/IV interface [polypeptide binding]; other site 1006007005672 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 1006007005673 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1006007005674 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007005675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007005676 Coenzyme A binding pocket [chemical binding]; other site 1006007005677 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007005678 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1006007005679 imidazolonepropionase; Validated; Region: PRK09356 1006007005680 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1006007005681 active site 1006007005682 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 1006007005683 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007005684 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007005685 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1006007005686 Protein export membrane protein; Region: SecD_SecF; cl14618 1006007005687 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, 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...; Region: sialate_O-acetylesterase_like2; cd01828 1006007005688 active site 1006007005689 catalytic triad [active] 1006007005690 oxyanion hole [active] 1006007005691 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1006007005692 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 1006007005693 FMN binding site [chemical binding]; other site 1006007005694 active site 1006007005695 substrate binding site [chemical binding]; other site 1006007005696 catalytic residue [active] 1006007005697 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1006007005698 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 1006007005699 glycosyltransferase, MGT family; Region: MGT; TIGR01426 1006007005700 active site 1006007005701 TDP-binding site; other site 1006007005702 acceptor substrate-binding pocket; other site 1006007005703 homodimer interface [polypeptide binding]; other site 1006007005704 CAAX protease self-immunity; Region: Abi; pfam02517 1006007005705 Spore germination protein; Region: Spore_permease; cl17796 1006007005706 Rhamnan synthesis protein F; Region: RgpF; pfam05045 1006007005707 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007005708 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007005709 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1006007005710 DNA binding residues [nucleotide binding] 1006007005711 dimer interface [polypeptide binding]; other site 1006007005712 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1006007005713 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007005714 MarR family; Region: MarR; pfam01047 1006007005715 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 1006007005716 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007005717 putative substrate translocation pore; other site 1006007005718 YolD-like protein; Region: YolD; pfam08863 1006007005719 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 1006007005720 Flavodoxin; Region: Flavodoxin_1; pfam00258 1006007005721 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 1006007005722 FAD binding pocket [chemical binding]; other site 1006007005723 FAD binding motif [chemical binding]; other site 1006007005724 catalytic residues [active] 1006007005725 NAD binding pocket [chemical binding]; other site 1006007005726 phosphate binding motif [ion binding]; other site 1006007005727 beta-alpha-beta structure motif; other site 1006007005728 sulfite reductase subunit beta; Provisional; Region: PRK13504 1006007005729 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1006007005730 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1006007005731 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1006007005732 classical (c) SDRs; Region: SDR_c; cd05233 1006007005733 NAD(P) binding site [chemical binding]; other site 1006007005734 active site 1006007005735 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007005736 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007005737 Coenzyme A binding pocket [chemical binding]; other site 1006007005738 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007005739 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007005740 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 1006007005741 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1006007005742 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1006007005743 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1006007005744 putative NAD(P) binding site [chemical binding]; other site 1006007005745 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1006007005746 Transcriptional regulator; Region: Rrf2; pfam02082 1006007005747 Rrf2 family protein; Region: rrf2_super; TIGR00738 1006007005748 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1006007005749 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1006007005750 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1006007005751 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 1006007005752 dimerization interface [polypeptide binding]; other site 1006007005753 putative DNA binding site [nucleotide binding]; other site 1006007005754 putative Zn2+ binding site [ion binding]; other site 1006007005755 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1006007005756 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 1006007005757 putative substrate translocation pore; other site 1006007005758 chaperone protein DnaJ; Provisional; Region: PRK10767 1006007005759 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007005760 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 1006007005761 non-specific DNA binding site [nucleotide binding]; other site 1006007005762 salt bridge; other site 1006007005763 sequence-specific DNA binding site [nucleotide binding]; other site 1006007005764 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1006007005765 active site 1006007005766 homodimer interface [polypeptide binding]; other site 1006007005767 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1006007005768 Aspartase; Region: Aspartase; cd01357 1006007005769 active sites [active] 1006007005770 tetramer interface [polypeptide binding]; other site 1006007005771 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1006007005772 nucleotide binding site/active site [active] 1006007005773 HIT family signature motif; other site 1006007005774 catalytic residue [active] 1006007005775 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007005776 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1006007005777 DNA binding residues [nucleotide binding] 1006007005778 Clp protease; Region: CLP_protease; pfam00574 1006007005779 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1006007005780 oligomer interface [polypeptide binding]; other site 1006007005781 active site residues [active] 1006007005782 Predicted membrane protein [Function unknown]; Region: COG2261 1006007005783 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007005784 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1006007005785 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1006007005786 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007005787 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007005788 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 1006007005789 PAS domain; Region: PAS_9; pfam13426 1006007005790 putative active site [active] 1006007005791 heme pocket [chemical binding]; other site 1006007005792 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007005793 B12 binding domain; Region: B12-binding_2; pfam02607 1006007005794 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cd02065 1006007005795 B12 binding site [chemical binding]; other site 1006007005796 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 1006007005797 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007005798 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007005799 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1006007005800 putative dimerization interface [polypeptide binding]; other site 1006007005801 Bacillus subtilis (Bs) citrate synthase CS-I_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). 2MCS catalyzes the...; Region: BsCS-I_like; cd06109 1006007005802 dimer interface [polypeptide binding]; other site 1006007005803 Citrate synthase; Region: Citrate_synt; pfam00285 1006007005804 active site 1006007005805 citrylCoA binding site [chemical binding]; other site 1006007005806 oxalacetate/citrate binding site [chemical binding]; other site 1006007005807 coenzyme A binding site [chemical binding]; other site 1006007005808 catalytic triad [active] 1006007005809 Domain of unknown function (DUF4306); Region: DUF4306; pfam14154 1006007005810 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1006007005811 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1006007005812 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007005813 H+ Antiporter protein; Region: 2A0121; TIGR00900 1006007005814 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1006007005815 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007005816 Coenzyme A binding pocket [chemical binding]; other site 1006007005817 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007005818 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007005819 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007005820 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007005821 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1006007005822 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1006007005823 putative dimer interface [polypeptide binding]; other site 1006007005824 active site pocket [active] 1006007005825 putative cataytic base [active] 1006007005826 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1006007005827 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 1006007005828 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1006007005829 phosphopeptide binding site; other site 1006007005830 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007005831 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 1006007005832 DNA binding site [nucleotide binding] 1006007005833 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1006007005834 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 1006007005835 S-adenosylmethionine binding site [chemical binding]; other site 1006007005836 DinB family; Region: DinB; cl17821 1006007005837 DinB superfamily; Region: DinB_2; pfam12867 1006007005838 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1006007005839 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1006007005840 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1006007005841 potential frameshift: common BLAST hit: gi|294499793|ref|YP_003563493.1| putative N-acetylmuramoyl-L-alanine amidase 1006007005842 Bacterial SH3 domain; Region: SH3_3; pfam08239 1006007005843 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1006007005844 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 1006007005845 active site 1006007005846 metal binding site [ion binding]; metal-binding site 1006007005847 Bacterial SH3 domain; Region: SH3_3; pfam08239 1006007005848 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1006007005849 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1006007005850 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1006007005851 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1006007005852 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 1006007005853 dimer interface [polypeptide binding]; other site 1006007005854 FMN binding site [chemical binding]; other site 1006007005855 NADPH bind site [chemical binding]; other site 1006007005856 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1006007005857 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 1006007005858 dimerization interface [polypeptide binding]; other site 1006007005859 putative DNA binding site [nucleotide binding]; other site 1006007005860 putative Zn2+ binding site [ion binding]; other site 1006007005861 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 1006007005862 CHY zinc finger; Region: zf-CHY; pfam05495 1006007005863 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 1006007005864 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 1006007005865 active site 1006007005866 homodimer interface [polypeptide binding]; other site 1006007005867 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1006007005868 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1006007005869 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1006007005870 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1006007005871 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 1006007005872 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1006007005873 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 1006007005874 Ligand Binding Site [chemical binding]; other site 1006007005875 FOG: CBS domain [General function prediction only]; Region: COG0517 1006007005876 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 1006007005877 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1006007005878 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 1006007005879 Catalytic site [active] 1006007005880 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1006007005881 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 1006007005882 phosphate binding site [ion binding]; other site 1006007005883 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1006007005884 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 1006007005885 Predicted membrane protein [Function unknown]; Region: COG3766 1006007005886 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1006007005887 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1006007005888 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1006007005889 Na2 binding site [ion binding]; other site 1006007005890 putative substrate binding site 1 [chemical binding]; other site 1006007005891 Na binding site 1 [ion binding]; other site 1006007005892 putative substrate binding site 2 [chemical binding]; other site 1006007005893 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1006007005894 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 1006007005895 tetramer interface [polypeptide binding]; other site 1006007005896 heme binding pocket [chemical binding]; other site 1006007005897 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1006007005898 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007005899 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1006007005900 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007005901 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007005902 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007005903 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007005904 Domain of unknown function DUF77; Region: DUF77; pfam01910 1006007005905 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1006007005906 DRTGG domain; Region: DRTGG; pfam07085 1006007005907 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1006007005908 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1006007005909 allantoate amidohydrolase; Reviewed; Region: PRK09290 1006007005910 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1006007005911 active site 1006007005912 metal binding site [ion binding]; metal-binding site 1006007005913 dimer interface [polypeptide binding]; other site 1006007005914 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1006007005915 homodimer interface [polypeptide binding]; other site 1006007005916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007005917 catalytic residue [active] 1006007005918 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1006007005919 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1006007005920 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1006007005921 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1006007005922 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007005923 Coenzyme A binding pocket [chemical binding]; other site 1006007005924 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 1006007005925 Chorismate mutase type II; Region: CM_2; cl00693 1006007005926 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1006007005927 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1006007005928 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1006007005929 Tetramer interface [polypeptide binding]; other site 1006007005930 active site 1006007005931 FMN-binding site [chemical binding]; other site 1006007005932 prephenate dehydrogenase; Validated; Region: PRK08507 1006007005933 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 1006007005934 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1006007005935 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 1006007005936 active site 1006007005937 hinge; other site 1006007005938 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1006007005939 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1006007005940 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 1006007005941 [2Fe-2S] cluster binding site [ion binding]; other site 1006007005942 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1006007005943 FOG: CBS domain [General function prediction only]; Region: COG0517 1006007005944 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 1006007005945 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 1006007005946 SpoOM protein; Region: Spo0M; pfam07070 1006007005947 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1006007005948 Domain of unknown function DUF21; Region: DUF21; pfam01595 1006007005949 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 1006007005950 Transporter associated domain; Region: CorC_HlyC; smart01091 1006007005951 Spore coat protein [Cell envelope biogenesis, outer membrane]; Region: COG5577 1006007005952 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1006007005953 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1006007005954 dimerization interface [polypeptide binding]; other site 1006007005955 DPS ferroxidase diiron center [ion binding]; other site 1006007005956 ion pore; other site 1006007005957 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1006007005958 Protein of unknown function (DUF867); Region: DUF867; pfam05908 1006007005959 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 1006007005960 CopC domain; Region: CopC; pfam04234 1006007005961 Copper resistance protein D; Region: CopD; cl00563 1006007005962 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1006007005963 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1006007005964 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007005965 Walker A/P-loop; other site 1006007005966 ATP binding site [chemical binding]; other site 1006007005967 Q-loop/lid; other site 1006007005968 ABC transporter signature motif; other site 1006007005969 Walker B; other site 1006007005970 D-loop; other site 1006007005971 H-loop/switch region; other site 1006007005972 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1006007005973 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1006007005974 potential catalytic triad [active] 1006007005975 conserved cys residue [active] 1006007005976 YtkA-like; Region: YtkA; pfam13115 1006007005977 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 1006007005978 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007005979 DNA-binding site [nucleotide binding]; DNA binding site 1006007005980 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 1006007005981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007005982 homodimer interface [polypeptide binding]; other site 1006007005983 catalytic residue [active] 1006007005984 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1006007005985 EamA-like transporter family; Region: EamA; pfam00892 1006007005986 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1006007005987 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1006007005988 Transglycosylase; Region: Transgly; pfam00912 1006007005989 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1006007005990 Predicted esterase [General function prediction only]; Region: COG0400 1006007005991 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1006007005992 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 1006007005993 NodB motif; other site 1006007005994 putative active site [active] 1006007005995 putative catalytic site [active] 1006007005996 putative Zn binding site [ion binding]; other site 1006007005997 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1006007005998 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1006007005999 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 1006007006000 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1006007006001 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 1006007006002 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 1006007006003 dimer interface [polypeptide binding]; other site 1006007006004 FMN binding site [chemical binding]; other site 1006007006005 NADPH bind site [chemical binding]; other site 1006007006006 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007006007 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007006008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1006007006009 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007006010 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007006011 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007006012 Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]; Region: TrpD; COG0547 1006007006013 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1006007006014 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1006007006015 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1006007006016 alpha-gamma subunit interface [polypeptide binding]; other site 1006007006017 beta-gamma subunit interface [polypeptide binding]; other site 1006007006018 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1006007006019 alpha-beta subunit interface [polypeptide binding]; other site 1006007006020 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1006007006021 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1006007006022 subunit interactions [polypeptide binding]; other site 1006007006023 active site 1006007006024 flap region; other site 1006007006025 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1006007006026 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1006007006027 dimer interface [polypeptide binding]; other site 1006007006028 catalytic residues [active] 1006007006029 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1006007006030 UreF; Region: UreF; pfam01730 1006007006031 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 1006007006032 UreD urease accessory protein; Region: UreD; cl00530 1006007006033 High-affinity nickel-transport protein; Region: NicO; cl00964 1006007006034 Protein of unknown function (DUF422); Region: DUF422; cl00991 1006007006035 potential frameshift: common BLAST hit: gi|294499707|ref|YP_003563407.1| acyltransferase 1006007006036 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 1006007006037 putative acyl-acceptor binding pocket; other site 1006007006038 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1006007006039 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 1006007006040 active site 1006007006041 phytoene desaturase; Region: crtI_fam; TIGR02734 1006007006042 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1006007006043 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1006007006044 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1006007006045 active site 1006007006046 intersubunit interface [polypeptide binding]; other site 1006007006047 catalytic residue [active] 1006007006048 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 1006007006049 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1006007006050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007006051 NAD(P) binding site [chemical binding]; other site 1006007006052 active site 1006007006053 Nitroreductase-like family 4. 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_4; cd02140 1006007006054 dimer interface [polypeptide binding]; other site 1006007006055 FMN binding site [chemical binding]; other site 1006007006056 amino acid transporter; Region: 2A0306; TIGR00909 1006007006057 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1006007006058 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 1006007006059 putative active site [active] 1006007006060 cobyric acid synthase; Provisional; Region: PRK00784 1006007006061 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1006007006062 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1006007006063 catalytic triad [active] 1006007006064 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1006007006065 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 1006007006066 ABC-ATPase subunit interface; other site 1006007006067 dimer interface [polypeptide binding]; other site 1006007006068 putative PBP binding regions; other site 1006007006069 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1006007006070 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1006007006071 Walker A/P-loop; other site 1006007006072 ATP binding site [chemical binding]; other site 1006007006073 Q-loop/lid; other site 1006007006074 ABC transporter signature motif; other site 1006007006075 Walker B; other site 1006007006076 D-loop; other site 1006007006077 H-loop/switch region; other site 1006007006078 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1006007006079 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1006007006080 putative dimer interface [polypeptide binding]; other site 1006007006081 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1006007006082 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1006007006083 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1006007006084 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1006007006085 PAS domain; Region: PAS_9; pfam13426 1006007006086 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007006087 Predicted membrane protein [Function unknown]; Region: COG4640 1006007006088 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1006007006089 YARHG domain; Region: YARHG; pfam13308 1006007006090 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1006007006091 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 1006007006092 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1006007006093 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 1006007006094 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1006007006095 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1006007006096 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1006007006097 Protein of unknown function (DUF2639); Region: DUF2639; pfam11121 1006007006098 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1006007006099 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 1006007006100 active site 1006007006101 putative catalytic site [active] 1006007006102 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 1006007006103 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1006007006104 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1006007006105 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1006007006106 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1006007006107 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1006007006108 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 1006007006109 dimerization interface [polypeptide binding]; other site 1006007006110 ligand binding site [chemical binding]; other site 1006007006111 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1006007006112 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 1006007006113 TM-ABC transporter signature motif; other site 1006007006114 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1006007006115 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 1006007006116 TM-ABC transporter signature motif; other site 1006007006117 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1006007006118 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1006007006119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1006007006120 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1006007006121 Predicted membrane protein [Function unknown]; Region: COG2311 1006007006122 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1006007006123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007006124 NAD(P) binding site [chemical binding]; other site 1006007006125 active site 1006007006126 peroxiredoxin, SACOL1771 subfamily; Region: perox_SACOL1771; TIGR03563 1006007006127 potential frameshift: common BLAST hit: gi|294499655|ref|YP_003563355.1| drug resistance MFS transporter 1006007006128 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 1006007006129 putative substrate translocation pore; other site 1006007006130 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 1006007006131 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007006132 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1006007006133 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1006007006134 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 1006007006135 TPP-binding site [chemical binding]; other site 1006007006136 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1006007006137 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1006007006138 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 1006007006139 E3 interaction surface; other site 1006007006140 lipoyl attachment site [posttranslational modification]; other site 1006007006141 e3 binding domain; Region: E3_binding; pfam02817 1006007006142 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1006007006143 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007006144 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007006145 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1006007006146 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1006007006147 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1006007006148 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1006007006149 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1006007006150 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 1006007006151 dimerization interface [polypeptide binding]; other site 1006007006152 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 1006007006153 dimer interface [polypeptide binding]; other site 1006007006154 phosphorylation site [posttranslational modification] 1006007006155 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 1006007006156 Mg2+ binding site [ion binding]; other site 1006007006157 G-X-G motif; other site 1006007006158 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1006007006159 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1006007006160 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1006007006161 Predicted membrane protein [Function unknown]; Region: COG2323 1006007006162 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1006007006163 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1006007006164 putative active site [active] 1006007006165 putative metal binding site [ion binding]; other site 1006007006166 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 1006007006167 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 1006007006168 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1006007006169 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 1006007006170 oligomer interface [polypeptide binding]; other site 1006007006171 metal binding site [ion binding]; metal-binding site 1006007006172 metal binding site [ion binding]; metal-binding site 1006007006173 putative Cl binding site [ion binding]; other site 1006007006174 aspartate ring; other site 1006007006175 basic sphincter; other site 1006007006176 hydrophobic gate; other site 1006007006177 periplasmic entrance; other site 1006007006178 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007006179 potential frameshift: common BLAST hit: gi|294499639|ref|YP_003563339.1| alkanesulfonate monooxygenase 1006007006180 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1006007006181 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1006007006182 Esterase/lipase [General function prediction only]; Region: COG1647 1006007006183 yiaA/B two helix domain; Region: YiaAB; pfam05360 1006007006184 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1006007006185 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 1006007006186 RNA polymerase sigma factor SigY; Reviewed; Region: PRK09638 1006007006187 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007006188 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 1006007006189 DNA binding residues [nucleotide binding] 1006007006190 Rifin/stevor family; Region: Rifin_STEVOR; cl14106 1006007006191 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1006007006192 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1006007006193 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1006007006194 Walker A/P-loop; other site 1006007006195 ATP binding site [chemical binding]; other site 1006007006196 Q-loop/lid; other site 1006007006197 ABC transporter signature motif; other site 1006007006198 Walker B; other site 1006007006199 D-loop; other site 1006007006200 H-loop/switch region; other site 1006007006201 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1006007006202 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 1006007006203 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1006007006204 L-lactate permease; Region: Lactate_perm; pfam02652 1006007006205 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1006007006206 FAD binding domain; Region: FAD_binding_4; pfam01565 1006007006207 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1006007006208 Cysteine-rich domain; Region: CCG; pfam02754 1006007006209 Cysteine-rich domain; Region: CCG; pfam02754 1006007006210 FAD binding domain; Region: FAD_binding_4; pfam01565 1006007006211 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1006007006212 malate synthase G; Provisional; Region: PRK02999 1006007006213 active site 1006007006214 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1006007006215 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 1006007006216 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1006007006217 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1006007006218 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1006007006219 Bacterial transcriptional regulator; Region: IclR; pfam01614 1006007006220 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1006007006221 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1006007006222 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1006007006223 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1006007006224 Int/Topo IB signature motif; other site 1006007006225 Protein of unknown function DUF262; Region: DUF262; pfam03235 1006007006226 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1006007006227 Protein of unknown function DUF262; Region: DUF262; pfam03235 1006007006228 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1006007006229 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1006007006230 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1006007006231 Helix-turn-helix domain; Region: HTH_36; pfam13730 1006007006232 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 1006007006233 ATP binding site [chemical binding]; other site 1006007006234 putative Mg++ binding site [ion binding]; other site 1006007006235 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1006007006236 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1006007006237 Uncharacterized conserved protein [Function unknown]; Region: COG4278 1006007006238 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1006007006239 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 1006007006240 active site 1006007006241 motif I; other site 1006007006242 motif II; other site 1006007006243 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1006007006244 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1006007006245 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1006007006246 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 1006007006247 active site 1006007006248 motif I; other site 1006007006249 motif II; other site 1006007006250 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1006007006251 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 1006007006252 malate:quinone oxidoreductase; Validated; Region: PRK05257 1006007006253 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1006007006254 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1006007006255 Staphylococcal nuclease homologues; Region: SNc; smart00318 1006007006256 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1006007006257 Catalytic site; other site 1006007006258 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1006007006259 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007006260 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007006261 Coenzyme A binding pocket [chemical binding]; other site 1006007006262 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1006007006263 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007006264 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007006265 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007006266 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 1006007006267 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1006007006268 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_3; cd08490 1006007006269 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1006007006270 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 1006007006271 dimer interface [polypeptide binding]; other site 1006007006272 conserved gate region; other site 1006007006273 putative PBP binding loops; other site 1006007006274 ABC-ATPase subunit interface; other site 1006007006275 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1006007006276 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 1006007006277 dimer interface [polypeptide binding]; other site 1006007006278 conserved gate region; other site 1006007006279 putative PBP binding loops; other site 1006007006280 ABC-ATPase subunit interface; other site 1006007006281 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1006007006282 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1006007006283 Walker A/P-loop; other site 1006007006284 ATP binding site [chemical binding]; other site 1006007006285 Q-loop/lid; other site 1006007006286 ABC transporter signature motif; other site 1006007006287 Walker B; other site 1006007006288 D-loop; other site 1006007006289 H-loop/switch region; other site 1006007006290 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1006007006291 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1006007006292 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1006007006293 Walker A/P-loop; other site 1006007006294 ATP binding site [chemical binding]; other site 1006007006295 Q-loop/lid; other site 1006007006296 ABC transporter signature motif; other site 1006007006297 Walker B; other site 1006007006298 D-loop; other site 1006007006299 H-loop/switch region; other site 1006007006300 Predicted membrane protein [Function unknown]; Region: COG4325 1006007006301 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1006007006302 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 1006007006303 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1006007006304 Domain of unknown function DUF21; Region: DUF21; pfam01595 1006007006305 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 1006007006306 Transporter associated domain; Region: CorC_HlyC; smart01091 1006007006307 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1006007006308 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 1006007006309 catalytic core [active] 1006007006310 Peptidase family M23; Region: Peptidase_M23; pfam01551 1006007006311 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1006007006312 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007006313 DNA-binding site [nucleotide binding]; DNA binding site 1006007006314 FCD domain; Region: FCD; pfam07729 1006007006315 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1006007006316 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1006007006317 NAD(P) binding site [chemical binding]; other site 1006007006318 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 1006007006319 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1006007006320 NADP binding site [chemical binding]; other site 1006007006321 homodimer interface [polypeptide binding]; other site 1006007006322 active site 1006007006323 topology modulation protein; Reviewed; Region: PRK08118 1006007006324 AAA domain; Region: AAA_17; pfam13207 1006007006325 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007006326 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1006007006327 active site 1006007006328 metal binding site [ion binding]; metal-binding site 1006007006329 EamA-like transporter family; Region: EamA; pfam00892 1006007006330 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1006007006331 EamA-like transporter family; Region: EamA; pfam00892 1006007006332 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007006333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007006334 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007006335 dimerization interface [polypeptide binding]; other site 1006007006336 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1006007006337 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1006007006338 dimer interface [polypeptide binding]; other site 1006007006339 active site 1006007006340 metal binding site [ion binding]; metal-binding site 1006007006341 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 1006007006342 putative inner membrane protein; Provisional; Region: PRK11099 1006007006343 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1006007006344 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1006007006345 putative active site [active] 1006007006346 putative metal binding site [ion binding]; other site 1006007006347 Predicted acetyltransferase [General function prediction only]; Region: COG5628 1006007006348 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 1006007006349 short chain dehydrogenase; Provisional; Region: PRK06197 1006007006350 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1006007006351 putative NAD(P) binding site [chemical binding]; other site 1006007006352 active site 1006007006353 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 1006007006354 dimer interface [polypeptide binding]; other site 1006007006355 conserved gate region; other site 1006007006356 putative PBP binding loops; other site 1006007006357 ABC-ATPase subunit interface; other site 1006007006358 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1006007006359 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 1006007006360 dimer interface [polypeptide binding]; other site 1006007006361 conserved gate region; other site 1006007006362 putative PBP binding loops; other site 1006007006363 ABC-ATPase subunit interface; other site 1006007006364 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1006007006365 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1006007006366 LXG domain of WXG superfamily; Region: LXG; pfam04740 1006007006367 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 1006007006368 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 1006007006369 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1006007006370 hypothetical protein; Provisional; Region: PRK02237 1006007006371 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1006007006372 Peptidase family M48; Region: Peptidase_M48; cl12018 1006007006373 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007006374 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1006007006375 hypothetical protein; Validated; Region: PRK07668 1006007006376 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1006007006377 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1006007006378 active site 1006007006379 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 1006007006380 metal binding site [ion binding]; metal-binding site 1006007006381 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 1006007006382 PLD-like domain; Region: PLDc_2; pfam13091 1006007006383 putative homodimer interface [polypeptide binding]; other site 1006007006384 putative active site [active] 1006007006385 catalytic site [active] 1006007006386 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1006007006387 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 1006007006388 ATP binding site [chemical binding]; other site 1006007006389 putative Mg++ binding site [ion binding]; other site 1006007006390 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 1006007006391 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1006007006392 nucleotide binding region [chemical binding]; other site 1006007006393 ATP-binding site [chemical binding]; other site 1006007006394 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1006007006395 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 1006007006396 DNA binding residues [nucleotide binding] 1006007006397 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1006007006398 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1006007006399 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1006007006400 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1006007006401 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1006007006402 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1006007006403 intersubunit interface [polypeptide binding]; other site 1006007006404 active site 1006007006405 catalytic residue [active] 1006007006406 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 1006007006407 active site 1006007006408 catalytic motif [active] 1006007006409 Zn binding site [ion binding]; other site 1006007006410 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1006007006411 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1006007006412 Nucleoside recognition; Region: Gate; pfam07670 1006007006413 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1006007006414 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1006007006415 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 1006007006416 H+ Antiporter protein; Region: 2A0121; TIGR00900 1006007006417 putative substrate translocation pore; other site 1006007006418 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 1006007006419 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1006007006420 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1006007006421 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 1006007006422 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1006007006423 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1006007006424 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 1006007006425 substrate binding pocket [chemical binding]; other site 1006007006426 membrane-bound complex binding site; other site 1006007006427 hinge residues; other site 1006007006428 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1006007006429 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007006430 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007006431 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1006007006432 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1006007006433 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1006007006434 active site 1006007006435 NAD binding site [chemical binding]; other site 1006007006436 metal binding site [ion binding]; metal-binding site 1006007006437 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1006007006438 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1006007006439 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1006007006440 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1006007006441 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 1006007006442 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1006007006443 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1006007006444 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1006007006445 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1006007006446 catalytic site [active] 1006007006447 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1006007006448 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 1006007006449 motif II; other site 1006007006450 Protein of unknown function (DUF3951); Region: DUF3951; pfam13131 1006007006451 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 1006007006452 S-adenosylmethionine binding site [chemical binding]; other site 1006007006453 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1006007006454 active site 1006007006455 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007006456 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007006457 DNA binding site [nucleotide binding] 1006007006458 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1006007006459 putative dimerization interface [polypeptide binding]; other site 1006007006460 putative ligand binding site [chemical binding]; other site 1006007006461 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1006007006462 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1006007006463 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1006007006464 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 1006007006465 dimer interface [polypeptide binding]; other site 1006007006466 conserved gate region; other site 1006007006467 putative PBP binding loops; other site 1006007006468 ABC-ATPase subunit interface; other site 1006007006469 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1006007006470 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 1006007006471 dimer interface [polypeptide binding]; other site 1006007006472 conserved gate region; other site 1006007006473 putative PBP binding loops; other site 1006007006474 ABC-ATPase subunit interface; other site 1006007006475 alpha-galactosidase; Provisional; Region: PRK15076 1006007006476 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 1006007006477 NAD binding site [chemical binding]; other site 1006007006478 sugar binding site [chemical binding]; other site 1006007006479 divalent metal binding site [ion binding]; other site 1006007006480 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1006007006481 dimer interface [polypeptide binding]; other site 1006007006482 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1006007006483 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007006484 ABC transporter; Region: ABC_tran_2; pfam12848 1006007006485 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007006486 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1006007006487 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 1006007006488 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 1006007006489 LXG domain of WXG superfamily; Region: LXG; pfam04740 1006007006490 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 1006007006491 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1006007006492 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 1006007006493 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 1006007006494 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 1006007006495 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 1006007006496 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1006007006497 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1006007006498 malate:quinone oxidoreductase; Validated; Region: PRK05257 1006007006499 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1006007006500 DinB family; Region: DinB; cl17821 1006007006501 DinB superfamily; Region: DinB_2; pfam12867 1006007006502 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1006007006503 Phosphotransferase enzyme family; Region: APH; pfam01636 1006007006504 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 1006007006505 active site 1006007006506 substrate binding site [chemical binding]; other site 1006007006507 ATP binding site [chemical binding]; other site 1006007006508 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1006007006509 active site 1006007006510 nucleophile elbow; other site 1006007006511 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1006007006512 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 1006007006513 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 1006007006514 active site 1006007006515 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 1006007006516 GIY-YIG motif/motif A; other site 1006007006517 putative active site [active] 1006007006518 putative metal binding site [ion binding]; other site 1006007006519 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 1006007006520 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1006007006521 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1006007006522 HIGH motif; other site 1006007006523 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1006007006524 active site 1006007006525 KMSKS motif; other site 1006007006526 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1006007006527 tRNA binding surface [nucleotide binding]; other site 1006007006528 anticodon binding site; other site 1006007006529 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1006007006530 active site pocket [active] 1006007006531 oxyanion hole [active] 1006007006532 catalytic triad [active] 1006007006533 active site nucleophile [active] 1006007006534 Cupin; Region: Cupin_1; smart00835 1006007006535 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1006007006536 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1006007006537 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1006007006538 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007006539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1006007006540 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1006007006541 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 1006007006542 putative substrate translocation pore; other site 1006007006543 Predicted membrane protein [Function unknown]; Region: COG2323 1006007006544 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1006007006545 LytTr DNA-binding domain; Region: LytTR; pfam04397 1006007006546 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1006007006547 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1006007006548 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1006007006549 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1006007006550 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1006007006551 NADP binding site [chemical binding]; other site 1006007006552 dimer interface [polypeptide binding]; other site 1006007006553 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1006007006554 classical (c) SDRs; Region: SDR_c; cd05233 1006007006555 NAD(P) binding site [chemical binding]; other site 1006007006556 active site 1006007006557 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1006007006558 classical (c) SDRs; Region: SDR_c; cd05233 1006007006559 NAD(P) binding site [chemical binding]; other site 1006007006560 active site 1006007006561 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 1006007006562 DNA-binding site [nucleotide binding]; DNA binding site 1006007006563 RNA-binding motif; other site 1006007006564 pyruvate oxidase; Provisional; Region: PRK08611 1006007006565 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1006007006566 PYR/PP interface [polypeptide binding]; other site 1006007006567 dimer interface [polypeptide binding]; other site 1006007006568 tetramer interface [polypeptide binding]; other site 1006007006569 TPP binding site [chemical binding]; other site 1006007006570 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1006007006571 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 1006007006572 TPP-binding site [chemical binding]; other site 1006007006573 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 1006007006574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007006575 DNA-binding site [nucleotide binding]; DNA binding site 1006007006576 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 1006007006577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007006578 homodimer interface [polypeptide binding]; other site 1006007006579 catalytic residue [active] 1006007006580 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 1006007006581 DNA-binding site [nucleotide binding]; DNA binding site 1006007006582 RNA-binding motif; other site 1006007006583 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1006007006584 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1006007006585 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 1006007006586 active site 1006007006587 catalytic triad [active] 1006007006588 oxyanion hole [active] 1006007006589 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1006007006590 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007006591 Walker A/P-loop; other site 1006007006592 ATP binding site [chemical binding]; other site 1006007006593 Q-loop/lid; other site 1006007006594 ABC transporter signature motif; other site 1006007006595 Walker B; other site 1006007006596 D-loop; other site 1006007006597 H-loop/switch region; other site 1006007006598 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1006007006599 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1006007006600 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK09419 1006007006601 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1006007006602 active site 1006007006603 metal binding site [ion binding]; metal-binding site 1006007006604 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1006007006605 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 1006007006606 putative active site [active] 1006007006607 putative metal binding site [ion binding]; other site 1006007006608 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1006007006609 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1006007006610 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1006007006611 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1006007006612 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1006007006613 putative metal binding site [ion binding]; other site 1006007006614 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1006007006615 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1006007006616 putative metal binding site [ion binding]; other site 1006007006617 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 1006007006618 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 1006007006619 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1006007006620 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1006007006621 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1006007006622 putative oxidoreductase; Provisional; Region: PRK11579 1006007006623 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1006007006624 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1006007006625 hypothetical protein; Provisional; Region: PRK02487 1006007006626 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1006007006627 active site 1006007006628 putative catalytic site [active] 1006007006629 DNA binding site [nucleotide binding] 1006007006630 putative phosphate binding site [ion binding]; other site 1006007006631 metal binding site A [ion binding]; metal-binding site 1006007006632 AP binding site [nucleotide binding]; other site 1006007006633 metal binding site B [ion binding]; metal-binding site 1006007006634 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007006635 MarR family; Region: MarR; pfam01047 1006007006636 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 1006007006637 putative substrate translocation pore; other site 1006007006638 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1006007006639 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1006007006640 HlyD family secretion protein; Region: HlyD_3; pfam13437 1006007006641 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1006007006642 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 1006007006643 LXG domain of WXG superfamily; Region: LXG; pfam04740 1006007006644 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 1006007006645 YwqJ-like deaminase; Region: YwqJ-deaminase; pfam14431 1006007006646 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1006007006647 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 1006007006648 Protein of unknown function (DUF2185); Region: DUF2185; cl02019 1006007006649 Protein of unknown function, DUF600; Region: DUF600; cl04640 1006007006650 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1006007006651 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1006007006652 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 1006007006653 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1006007006654 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 1006007006655 TPR repeat; Region: TPR_11; pfam13414 1006007006656 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 1006007006657 binding surface 1006007006658 TPR motif; other site 1006007006659 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1006007006660 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 1006007006661 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1006007006662 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1006007006663 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1006007006664 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1006007006665 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1006007006666 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1006007006667 active site 1006007006668 catalytic triad [active] 1006007006669 dimer interface [polypeptide binding]; other site 1006007006670 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1006007006671 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 1006007006672 Walker A motif; other site 1006007006673 ATP binding site [chemical binding]; other site 1006007006674 Walker B motif; other site 1006007006675 arginine finger; other site 1006007006676 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1006007006677 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1006007006678 active site 1006007006679 catalytic triad [active] 1006007006680 dimer interface [polypeptide binding]; other site 1006007006681 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1006007006682 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1006007006683 active site 1006007006684 catalytic site [active] 1006007006685 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1006007006686 Active_site [active] 1006007006687 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1006007006688 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1006007006689 Protein of unknown function (DUF3219); Region: DUF3219; pfam11514 1006007006690 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1006007006691 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1006007006692 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 1006007006693 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007006694 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007006695 Coenzyme A binding pocket [chemical binding]; other site 1006007006696 Predicted integral membrane protein [Function unknown]; Region: COG5542 1006007006697 allantoate amidohydrolase; Reviewed; Region: PRK09290 1006007006698 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1006007006699 active site 1006007006700 metal binding site [ion binding]; metal-binding site 1006007006701 dimer interface [polypeptide binding]; other site 1006007006702 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1006007006703 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 1006007006704 active site 1006007006705 phosphorylation site [posttranslational modification] 1006007006706 intermolecular recognition site; other site 1006007006707 dimerization interface [polypeptide binding]; other site 1006007006708 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 1006007006709 DNA binding residues [nucleotide binding] 1006007006710 dimerization interface [polypeptide binding]; other site 1006007006711 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1006007006712 Histidine kinase; Region: HisKA_3; pfam07730 1006007006713 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 1006007006714 ATP binding site [chemical binding]; other site 1006007006715 Mg2+ binding site [ion binding]; other site 1006007006716 G-X-G motif; other site 1006007006717 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1006007006718 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007006719 Walker A/P-loop; other site 1006007006720 ATP binding site [chemical binding]; other site 1006007006721 Q-loop/lid; other site 1006007006722 ABC transporter signature motif; other site 1006007006723 Walker B; other site 1006007006724 D-loop; other site 1006007006725 H-loop/switch region; other site 1006007006726 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1006007006727 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1006007006728 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1006007006729 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1006007006730 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1006007006731 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1006007006732 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 1006007006733 putative active site [active] 1006007006734 metal binding site [ion binding]; metal-binding site 1006007006735 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1006007006736 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1006007006737 IDEAL domain; Region: IDEAL; cl07452 1006007006738 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1006007006739 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1006007006740 conserved cys residue [active] 1006007006741 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1006007006742 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1006007006743 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1006007006744 FAD binding domain; Region: FAD_binding_4; pfam01565 1006007006745 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1006007006746 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 1006007006747 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1006007006748 Cysteine-rich domain; Region: CCG; pfam02754 1006007006749 Cysteine-rich domain; Region: CCG; pfam02754 1006007006750 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1006007006751 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1006007006752 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1006007006753 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 1006007006754 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 1006007006755 Membrane transport protein; Region: Mem_trans; cl09117 1006007006756 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007006757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007006758 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007006759 dimerization interface [polypeptide binding]; other site 1006007006760 aromatic acid decarboxylase; Validated; Region: PRK05920 1006007006761 Flavoprotein; Region: Flavoprotein; pfam02441 1006007006762 UbiD family decarboxylase; Region: TIGR00148 1006007006763 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1006007006764 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1006007006765 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1006007006766 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1006007006767 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 1006007006768 D-galactonate transporter; Region: 2A0114; TIGR00893 1006007006769 putative substrate translocation pore; other site 1006007006770 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1006007006771 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1006007006772 putative metal binding site [ion binding]; other site 1006007006773 malate dehydrogenase; Provisional; Region: PRK13529 1006007006774 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1006007006775 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1006007006776 NAD(P) binding site [chemical binding]; other site 1006007006777 Membrane transport protein; Region: Mem_trans; cl09117 1006007006778 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1006007006779 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1006007006780 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007006781 Uncharacterized conserved protein [Function unknown]; Region: COG2427 1006007006782 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1006007006783 A short protein domain of unknown function; Region: IDEAL; smart00914 1006007006784 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1006007006785 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1006007006786 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1006007006787 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1006007006788 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1006007006789 putative oligomer interface [polypeptide binding]; other site 1006007006790 putative active site [active] 1006007006791 metal binding site [ion binding]; metal-binding site 1006007006792 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1006007006793 dimer interface [polypeptide binding]; other site 1006007006794 [2Fe-2S] cluster binding site [ion binding]; other site 1006007006795 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1006007006796 active site 1006007006797 SAM binding site [chemical binding]; other site 1006007006798 homodimer interface [polypeptide binding]; other site 1006007006799 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 1006007006800 putative FMN binding site [chemical binding]; other site 1006007006801 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 1006007006802 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 1006007006803 stage II sporulation protein P; Region: spore_II_P; TIGR02867 1006007006804 RQC domain; Region: RQC; pfam09382 1006007006805 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1006007006806 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 1006007006807 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007006808 Coenzyme A binding pocket [chemical binding]; other site 1006007006809 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007006810 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 1006007006811 dimerization interface [polypeptide binding]; other site 1006007006812 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 1006007006813 dimer interface [polypeptide binding]; other site 1006007006814 phosphorylation site [posttranslational modification] 1006007006815 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 1006007006816 ATP binding site [chemical binding]; other site 1006007006817 Mg2+ binding site [ion binding]; other site 1006007006818 G-X-G motif; other site 1006007006819 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007006820 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 1006007006821 active site 1006007006822 phosphorylation site [posttranslational modification] 1006007006823 intermolecular recognition site; other site 1006007006824 dimerization interface [polypeptide binding]; other site 1006007006825 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 1006007006826 DNA binding site [nucleotide binding] 1006007006827 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1006007006828 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1006007006829 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1006007006830 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 1006007006831 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_cladeD; cd03379 1006007006832 active site clefts [active] 1006007006833 zinc binding site [ion binding]; other site 1006007006834 dimer interface [polypeptide binding]; other site 1006007006835 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 1006007006836 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1006007006837 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1006007006838 DNA binding residues [nucleotide binding] 1006007006839 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 1006007006840 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007006841 putative substrate translocation pore; other site 1006007006842 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 1006007006843 drug efflux system protein MdtG; Provisional; Region: PRK09874 1006007006844 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 1006007006845 putative substrate translocation pore; other site 1006007006846 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1006007006847 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1006007006848 Domain of unknown function (DUF202); Region: DUF202; cl09954 1006007006849 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1006007006850 Colicin V production protein; Region: Colicin_V; pfam02674 1006007006851 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 1006007006852 Asp23 family; Region: Asp23; pfam03780 1006007006853 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1006007006854 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1006007006855 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 1006007006856 putative substrate translocation pore; other site 1006007006857 Predicted transcriptional regulators [Transcription]; Region: COG1378 1006007006858 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 1006007006859 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 1006007006860 C-terminal domain interface [polypeptide binding]; other site 1006007006861 sugar binding site [chemical binding]; other site 1006007006862 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1006007006863 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1006007006864 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007006865 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1006007006866 hypothetical protein; Provisional; Region: PRK09272 1006007006867 hypothetical protein; Provisional; Region: PRK09272 1006007006868 Domain of unknown function (DUF4188); Region: DUF4188; pfam13826 1006007006869 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007006870 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1006007006871 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1006007006872 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1006007006873 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1006007006874 putative dimer interface [polypeptide binding]; other site 1006007006875 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 1006007006876 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 1006007006877 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 1006007006878 Protein of unknown function (DUF524); Region: DUF524; pfam04411 1006007006879 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1006007006880 Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen...; Region: KU; cl02666 1006007006881 DNA binding site [nucleotide binding] 1006007006882 heterodimer interface [polypeptide binding]; other site 1006007006883 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1006007006884 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1006007006885 putative dimer interface [polypeptide binding]; other site 1006007006886 Small acid-soluble spore protein P family; Region: SspP; cl12105 1006007006887 acid-soluble spore protein O; Provisional; Region: sspO; PRK02984 1006007006888 aconitate hydratase; Validated; Region: PRK09277 1006007006889 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1006007006890 substrate binding site [chemical binding]; other site 1006007006891 ligand binding site [chemical binding]; other site 1006007006892 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 1006007006893 substrate binding site [chemical binding]; other site 1006007006894 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1006007006895 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1006007006896 catalytic residues [active] 1006007006897 acid-soluble spore protein N; Provisional; Region: sspN; PRK09398 1006007006898 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 1006007006899 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 1006007006900 putative active site [active] 1006007006901 putative catalytic site [active] 1006007006902 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 1006007006903 PLD-like domain; Region: PLDc_2; pfam13091 1006007006904 putative active site [active] 1006007006905 putative catalytic site [active] 1006007006906 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 1006007006907 active site 1006007006908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4841 1006007006909 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1006007006910 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1006007006911 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 1006007006912 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 1006007006913 ATP binding site [chemical binding]; other site 1006007006914 Mg2+ binding site [ion binding]; other site 1006007006915 G-X-G motif; other site 1006007006916 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 1006007006917 anchoring element; other site 1006007006918 dimer interface [polypeptide binding]; other site 1006007006919 ATP binding site [chemical binding]; other site 1006007006920 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 1006007006921 active site 1006007006922 putative metal-binding site [ion binding]; other site 1006007006923 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1006007006924 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 1006007006925 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 1006007006926 CAP-like domain; other site 1006007006927 active site 1006007006928 primary dimer interface [polypeptide binding]; other site 1006007006929 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1006007006930 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1006007006931 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1006007006932 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1006007006933 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1006007006934 LysE type translocator; Region: LysE; pfam01810 1006007006935 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 1006007006936 Cupin domain; Region: Cupin_2; cl17218 1006007006937 Isochorismatase family; Region: Isochorismatase; pfam00857 1006007006938 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1006007006939 catalytic triad [active] 1006007006940 conserved cis-peptide bond; other site 1006007006941 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1006007006942 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007006943 Coenzyme A binding pocket [chemical binding]; other site 1006007006944 lysine transporter; Provisional; Region: PRK10836 1006007006945 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 1006007006946 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 1006007006947 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1006007006948 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1006007006949 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1006007006950 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; pfam05985 1006007006951 ethanolamine permease; Region: 2A0305; TIGR00908 1006007006952 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1006007006953 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 1006007006954 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1006007006955 active site 1006007006956 catalytic residues [active] 1006007006957 DNA binding site [nucleotide binding] 1006007006958 Int/Topo IB signature motif; other site 1006007006959 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007006960 MarR family; Region: MarR; pfam01047 1006007006961 MarR family; Region: MarR_2; cl17246 1006007006962 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1006007006963 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 1006007006964 motif II; other site 1006007006965 manganese transport protein MntH; Reviewed; Region: PRK00701 1006007006966 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1006007006967 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1006007006968 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1006007006969 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007006970 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007006971 Coenzyme A binding pocket [chemical binding]; other site 1006007006972 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 1006007006973 active site 1006007006974 homotetramer interface [polypeptide binding]; other site 1006007006975 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 1006007006976 xanthine permease; Region: pbuX; TIGR03173 1006007006977 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1006007006978 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1006007006979 putative acyl-acceptor binding pocket; other site 1006007006980 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1006007006981 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 1006007006982 homodimer interface [polypeptide binding]; other site 1006007006983 substrate-cofactor binding pocket; other site 1006007006984 catalytic residue [active] 1006007006985 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 1006007006986 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1006007006987 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1006007006988 DHHA2 domain; Region: DHHA2; pfam02833 1006007006989 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1006007006990 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1006007006991 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1006007006992 Autoinducer synthetase; Region: Autoind_synth; cl17404 1006007006993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007006994 Coenzyme A binding pocket [chemical binding]; other site 1006007006995 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 1006007006996 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 1006007006997 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1006007006998 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007006999 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 1006007007000 non-specific DNA binding site [nucleotide binding]; other site 1006007007001 salt bridge; other site 1006007007002 sequence-specific DNA binding site [nucleotide binding]; other site 1006007007003 Cupin domain; Region: Cupin_2; pfam07883 1006007007004 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1006007007005 GAF domain; Region: GAF; pfam01590 1006007007006 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007007007 Histidine kinase; Region: HisKA_3; pfam07730 1006007007008 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 1006007007009 ATP binding site [chemical binding]; other site 1006007007010 Mg2+ binding site [ion binding]; other site 1006007007011 G-X-G motif; other site 1006007007012 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1006007007013 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 1006007007014 active site 1006007007015 phosphorylation site [posttranslational modification] 1006007007016 intermolecular recognition site; other site 1006007007017 dimerization interface [polypeptide binding]; other site 1006007007018 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 1006007007019 DNA binding residues [nucleotide binding] 1006007007020 dimerization interface [polypeptide binding]; other site 1006007007021 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1006007007022 Predicted flavoprotein [General function prediction only]; Region: COG0431 1006007007023 H+ Antiporter protein; Region: 2A0121; TIGR00900 1006007007024 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 1006007007025 putative substrate translocation pore; other site 1006007007026 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1006007007027 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1006007007028 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 1006007007029 ATP binding site [chemical binding]; other site 1006007007030 putative Mg++ binding site [ion binding]; other site 1006007007031 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 1006007007032 nucleotide binding region [chemical binding]; other site 1006007007033 ATP-binding site [chemical binding]; other site 1006007007034 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1006007007035 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1006007007036 acetyl-CoA acetyltransferase; Provisional; Region: PRK06690 1006007007037 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 1006007007038 dimer interface [polypeptide binding]; other site 1006007007039 active site 1006007007040 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1006007007041 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1006007007042 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1006007007043 acyl-activating enzyme (AAE) consensus motif; other site 1006007007044 AMP binding site [chemical binding]; other site 1006007007045 active site 1006007007046 CoA binding site [chemical binding]; other site 1006007007047 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007007048 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007007049 Coenzyme A binding pocket [chemical binding]; other site 1006007007050 SET domain; Region: SET; pfam00856 1006007007051 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1006007007052 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007007053 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 1006007007054 DNA binding residues [nucleotide binding] 1006007007055 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 1006007007056 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 1006007007057 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1006007007058 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 1006007007059 Ca binding site [ion binding]; other site 1006007007060 active site 1006007007061 catalytic site [active] 1006007007062 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1006007007063 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1006007007064 putative active site [active] 1006007007065 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1006007007066 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 1006007007067 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1006007007068 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1006007007069 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 1006007007070 carboxyltransferase (CT) interaction site; other site 1006007007071 biotinylation site [posttranslational modification]; other site 1006007007072 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1006007007073 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1006007007074 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1006007007075 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1006007007076 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1006007007077 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1006007007078 Bacterial transcriptional regulator; Region: IclR; pfam01614 1006007007079 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1006007007080 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 1006007007081 active site 1006007007082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1006007007083 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007007084 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007007085 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 1006007007086 active site 1006007007087 SUMO-1 interface [polypeptide binding]; other site 1006007007088 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1006007007089 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1006007007090 putative active site [active] 1006007007091 putative metal binding site [ion binding]; other site 1006007007092 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1006007007093 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1006007007094 active site 1006007007095 metal binding site [ion binding]; metal-binding site 1006007007096 homotetramer interface [polypeptide binding]; other site 1006007007097 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1006007007098 Cache domain; Region: Cache_1; pfam02743 1006007007099 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1006007007100 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 1006007007101 dimerization interface [polypeptide binding]; other site 1006007007102 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1006007007103 dimer interface [polypeptide binding]; other site 1006007007104 putative CheW interface [polypeptide binding]; other site 1006007007105 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1006007007106 FAD binding domain; Region: FAD_binding_4; pfam01565 1006007007107 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007007108 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 1006007007109 putative substrate translocation pore; other site 1006007007110 Uncharacterized conserved protein [Function unknown]; Region: COG5609 1006007007111 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1006007007112 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 1006007007113 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 1006007007114 G1 box; other site 1006007007115 putative GEF interaction site [polypeptide binding]; other site 1006007007116 GTP/Mg2+ binding site [chemical binding]; other site 1006007007117 Switch I region; other site 1006007007118 G2 box; other site 1006007007119 G3 box; other site 1006007007120 Switch II region; other site 1006007007121 G4 box; other site 1006007007122 G5 box; other site 1006007007123 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 1006007007124 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 1006007007125 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 1006007007126 Tubby C 2; Region: Tub_2; cl02043 1006007007127 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1006007007128 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 1006007007129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007007130 catalytic residue [active] 1006007007131 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1006007007132 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 1006007007133 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 1006007007134 Protein of unknown function (DUF2185); Region: DUF2185; cl02019 1006007007135 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1006007007136 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 1006007007137 active site 1006007007138 acyl-activating enzyme (AAE) consensus motif; other site 1006007007139 putative CoA binding site [chemical binding]; other site 1006007007140 AMP binding site [chemical binding]; other site 1006007007141 VanW like protein; Region: VanW; pfam04294 1006007007142 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007007143 MarR family; Region: MarR; pfam01047 1006007007144 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1006007007145 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1006007007146 acyl-activating enzyme (AAE) consensus motif; other site 1006007007147 AMP binding site [chemical binding]; other site 1006007007148 active site 1006007007149 CoA binding site [chemical binding]; other site 1006007007150 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1006007007151 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1006007007152 NAD(P) binding site [chemical binding]; other site 1006007007153 putative active site [active] 1006007007154 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 1006007007155 putative active site [active] 1006007007156 putative CoA binding site [chemical binding]; other site 1006007007157 nudix motif; other site 1006007007158 metal binding site [ion binding]; metal-binding site 1006007007159 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 1006007007160 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 1006007007161 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1006007007162 cobalamin binding residues [chemical binding]; other site 1006007007163 putative BtuC binding residues; other site 1006007007164 dimer interface [polypeptide binding]; other site 1006007007165 Domain of unknown function (DUF378); Region: DUF378; cl00943 1006007007166 DinB superfamily; Region: DinB_2; pfam12867 1006007007167 transglutaminase; Provisional; Region: tgl; PRK03187 1006007007168 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1006007007169 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1006007007170 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1006007007171 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1006007007172 FtsX-like permease family; Region: FtsX; pfam02687 1006007007173 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1006007007174 FtsX-like permease family; Region: FtsX; pfam02687 1006007007175 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1006007007176 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1006007007177 Walker A/P-loop; other site 1006007007178 ATP binding site [chemical binding]; other site 1006007007179 Q-loop/lid; other site 1006007007180 ABC transporter signature motif; other site 1006007007181 Walker B; other site 1006007007182 D-loop; other site 1006007007183 H-loop/switch region; other site 1006007007184 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 1006007007185 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 1006007007186 putative FMN binding site [chemical binding]; other site 1006007007187 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1006007007188 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1006007007189 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1006007007190 NAD(P) binding site [chemical binding]; other site 1006007007191 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1006007007192 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1006007007193 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1006007007194 PLD-like domain; Region: PLDc_2; pfam13091 1006007007195 putative active site [active] 1006007007196 catalytic site [active] 1006007007197 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1006007007198 PLD-like domain; Region: PLDc_2; pfam13091 1006007007199 putative active site [active] 1006007007200 catalytic site [active] 1006007007201 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 1006007007202 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 1006007007203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007007204 DNA-binding site [nucleotide binding]; DNA binding site 1006007007205 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 1006007007206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007007207 homodimer interface [polypeptide binding]; other site 1006007007208 catalytic residue [active] 1006007007209 EamA-like transporter family; Region: EamA; pfam00892 1006007007210 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1006007007211 EamA-like transporter family; Region: EamA; pfam00892 1006007007212 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1006007007213 active site 1006007007214 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1006007007215 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007007216 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1006007007217 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1006007007218 Zn2+ binding site [ion binding]; other site 1006007007219 Mg2+ binding site [ion binding]; other site 1006007007220 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1006007007221 active site 1006007007222 catalytic residues [active] 1006007007223 DNA binding site [nucleotide binding] 1006007007224 Int/Topo IB signature motif; other site 1006007007225 Helix-turn-helix domain; Region: HTH_36; pfam13730 1006007007226 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1006007007227 chromosome segregation protein; Provisional; Region: PRK02224 1006007007228 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; cl17220 1006007007229 Transcriptional regulator; Region: Rrf2; cl17282 1006007007230 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007007231 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 1006007007232 non-specific DNA binding site [nucleotide binding]; other site 1006007007233 sequence-specific DNA binding site [nucleotide binding]; other site 1006007007234 salt bridge; other site 1006007007235 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 1006007007236 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1006007007237 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 1006007007238 putative ligand binding site [chemical binding]; other site 1006007007239 putative NAD binding site [chemical binding]; other site 1006007007240 putative catalytic site [active] 1006007007241 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1006007007242 L-serine binding site [chemical binding]; other site 1006007007243 ACT domain interface; other site 1006007007244 heat shock protein 90; Provisional; Region: PRK05218 1006007007245 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 1006007007246 ATP binding site [chemical binding]; other site 1006007007247 Mg2+ binding site [ion binding]; other site 1006007007248 G-X-G motif; other site 1006007007249 Protein of unknown function (DUF817); Region: DUF817; pfam05675 1006007007250 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 1006007007251 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1006007007252 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1006007007253 apolar tunnel; other site 1006007007254 heme binding site [chemical binding]; other site 1006007007255 dimerization interface [polypeptide binding]; other site 1006007007256 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1006007007257 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1006007007258 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1006007007259 active site residue [active] 1006007007260 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 1006007007261 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1006007007262 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1006007007263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007007264 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007007265 Coenzyme A binding pocket [chemical binding]; other site 1006007007266 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1006007007267 putative hydrolase; Provisional; Region: PRK02113 1006007007268 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 1006007007269 dimerization interface [polypeptide binding]; other site 1006007007270 putative DNA binding site [nucleotide binding]; other site 1006007007271 putative Zn2+ binding site [ion binding]; other site 1006007007272 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1006007007273 putative hydrophobic ligand binding site [chemical binding]; other site 1006007007274 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007007275 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1006007007276 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007007277 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1006007007278 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1006007007279 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 1006007007280 putative substrate translocation pore; other site 1006007007281 amino acid transporter; Region: 2A0306; TIGR00909 1006007007282 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1006007007283 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 1006007007284 active site 1006007007285 dimer interface [polypeptide binding]; other site 1006007007286 motif 1; other site 1006007007287 motif 2; other site 1006007007288 motif 3; other site 1006007007289 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 1006007007290 anticodon binding site; other site 1006007007291 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1006007007292 Sulfatase; Region: Sulfatase; pfam00884 1006007007293 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1006007007294 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1006007007295 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1006007007296 dimer interface [polypeptide binding]; other site 1006007007297 [2Fe-2S] cluster binding site [ion binding]; other site 1006007007298 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 1006007007299 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 1006007007300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007007301 homodimer interface [polypeptide binding]; other site 1006007007302 catalytic residue [active] 1006007007303 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1006007007304 EamA-like transporter family; Region: EamA; pfam00892 1006007007305 EamA-like transporter family; Region: EamA; pfam00892 1006007007306 Prephenate dehydratase; Region: PDT; pfam00800 1006007007307 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1006007007308 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 1006007007309 putative substrate translocation pore; other site 1006007007310 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1006007007311 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1006007007312 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1006007007313 dimer interface [polypeptide binding]; other site 1006007007314 active site 1006007007315 metal binding site [ion binding]; metal-binding site 1006007007316 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1006007007317 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007007318 Coenzyme A binding pocket [chemical binding]; other site 1006007007319 potential frameshift: common BLAST hit: gi|295704465|ref|YP_003597540.1| metal-dependent hydrolase 1006007007320 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1006007007321 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1006007007322 lysine transporter; Provisional; Region: PRK10836 1006007007323 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 1006007007324 toxin interface [polypeptide binding]; other site 1006007007325 Zn binding site [ion binding]; other site 1006007007326 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 1006007007327 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 1006007007328 FeS/SAM binding site; other site 1006007007329 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 1006007007330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007007331 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007007332 Coenzyme A binding pocket [chemical binding]; other site 1006007007333 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1006007007334 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1006007007335 MlrC C-terminus; Region: MlrC_C; pfam07171 1006007007336 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1006007007337 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1006007007338 NAD(P) binding site [chemical binding]; other site 1006007007339 catalytic residues [active] 1006007007340 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 1006007007341 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 1006007007342 inhibitor-cofactor binding pocket; inhibition site 1006007007343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007007344 catalytic residue [active] 1006007007345 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 1006007007346 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 1006007007347 inhibitor-cofactor binding pocket; inhibition site 1006007007348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007007349 catalytic residue [active] 1006007007350 putative acyltransferase; Provisional; Region: PRK05790 1006007007351 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 1006007007352 dimer interface [polypeptide binding]; other site 1006007007353 active site 1006007007354 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1006007007355 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1006007007356 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 1006007007357 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1006007007358 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1006007007359 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1006007007360 active site 1006007007361 multimer interface [polypeptide binding]; other site 1006007007362 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1006007007363 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1006007007364 NADP binding site [chemical binding]; other site 1006007007365 dimer interface [polypeptide binding]; other site 1006007007366 enoyl-CoA hydratase; Provisional; Region: PRK06688 1006007007367 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 1006007007368 substrate binding site [chemical binding]; other site 1006007007369 oxyanion hole (OAH) forming residues; other site 1006007007370 trimer interface [polypeptide binding]; other site 1006007007371 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1006007007372 classical (c) SDRs; Region: SDR_c; cd05233 1006007007373 NAD(P) binding site [chemical binding]; other site 1006007007374 active site 1006007007375 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1006007007376 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1006007007377 active site 1006007007378 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 1006007007379 Phosphotransferase enzyme family; Region: APH; pfam01636 1006007007380 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily 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: ACAD10_11_like; cd05154 1006007007381 putative active site [active] 1006007007382 putative substrate binding site [chemical binding]; other site 1006007007383 ATP binding site [chemical binding]; other site 1006007007384 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 1006007007385 active site 1006007007386 enoyl-CoA hydratase; Provisional; Region: PRK06688 1006007007387 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 1006007007388 substrate binding site [chemical binding]; other site 1006007007389 oxyanion hole (OAH) forming residues; other site 1006007007390 trimer interface [polypeptide binding]; other site 1006007007391 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1006007007392 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1006007007393 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1006007007394 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007007395 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007007396 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 1006007007397 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1006007007398 acyl-activating enzyme (AAE) consensus motif; other site 1006007007399 putative AMP binding site [chemical binding]; other site 1006007007400 putative active site [active] 1006007007401 putative CoA binding site [chemical binding]; other site 1006007007402 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1006007007403 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1006007007404 NADP binding site [chemical binding]; other site 1006007007405 homodimer interface [polypeptide binding]; other site 1006007007406 active site 1006007007407 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1006007007408 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1006007007409 FAD binding site [chemical binding]; other site 1006007007410 substrate binding site [chemical binding]; other site 1006007007411 catalytic base [active] 1006007007412 PAS domain S-box; Region: sensory_box; TIGR00229 1006007007413 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 1006007007414 putative active site [active] 1006007007415 heme pocket [chemical binding]; other site 1006007007416 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1006007007417 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 1006007007418 putative active site [active] 1006007007419 heme pocket [chemical binding]; other site 1006007007420 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 1006007007421 dimer interface [polypeptide binding]; other site 1006007007422 phosphorylation site [posttranslational modification] 1006007007423 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 1006007007424 ATP binding site [chemical binding]; other site 1006007007425 Mg2+ binding site [ion binding]; other site 1006007007426 G-X-G motif; other site 1006007007427 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 1006007007428 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1006007007429 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1006007007430 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1006007007431 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1006007007432 active site 1006007007433 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1006007007434 substrate binding site [chemical binding]; other site 1006007007435 catalytic residues [active] 1006007007436 dimer interface [polypeptide binding]; other site 1006007007437 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1006007007438 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1006007007439 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007007440 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007007441 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1006007007442 putative dimerization interface [polypeptide binding]; other site 1006007007443 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1006007007444 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 1006007007445 S-adenosylmethionine binding site [chemical binding]; other site 1006007007446 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1006007007447 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1006007007448 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1006007007449 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1006007007450 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007007451 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1006007007452 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007007453 Coenzyme A binding pocket [chemical binding]; other site 1006007007454 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1006007007455 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1006007007456 metal binding site [ion binding]; metal-binding site 1006007007457 dimer interface [polypeptide binding]; other site 1006007007458 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1006007007459 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007007460 NAD(P) binding site [chemical binding]; other site 1006007007461 active site 1006007007462 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1006007007463 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1006007007464 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1006007007465 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 1006007007466 Citrate transporter; Region: CitMHS; pfam03600 1006007007467 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1006007007468 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 1006007007469 active site 1006007007470 phosphorylation site [posttranslational modification] 1006007007471 intermolecular recognition site; other site 1006007007472 dimerization interface [polypeptide binding]; other site 1006007007473 potential frameshift: common BLAST hit: gi|295704415|ref|YP_003597490.1| two-component sensor histidine kinase CitS 1006007007474 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 1006007007475 ATP binding site [chemical binding]; other site 1006007007476 Mg2+ binding site [ion binding]; other site 1006007007477 G-X-G motif; other site 1006007007478 potential frameshift: common BLAST hit: gi|295704415|ref|YP_003597490.1| two-component sensor histidine kinase CitS 1006007007479 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1006007007480 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1006007007481 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1006007007482 classical (c) SDRs; Region: SDR_c; cd05233 1006007007483 NAD(P) binding site [chemical binding]; other site 1006007007484 active site 1006007007485 small, acid-soluble spore protein L; Region: SASP_sspL; TIGR03093 1006007007486 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 1006007007487 dimer interface [polypeptide binding]; other site 1006007007488 FMN binding site [chemical binding]; other site 1006007007489 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1006007007490 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1006007007491 active site 1006007007492 intersubunit interactions; other site 1006007007493 catalytic residue [active] 1006007007494 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 1006007007495 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1006007007496 active site 1006007007497 metal binding site [ion binding]; metal-binding site 1006007007498 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1006007007499 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1006007007500 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1006007007501 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1006007007502 active site 1006007007503 Zn binding site [ion binding]; other site 1006007007504 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1006007007505 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 1006007007506 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 1006007007507 putative active site [active] 1006007007508 heme pocket [chemical binding]; other site 1006007007509 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 1006007007510 putative active site [active] 1006007007511 heme pocket [chemical binding]; other site 1006007007512 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 1006007007513 dimer interface [polypeptide binding]; other site 1006007007514 phosphorylation site [posttranslational modification] 1006007007515 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 1006007007516 ATP binding site [chemical binding]; other site 1006007007517 Mg2+ binding site [ion binding]; other site 1006007007518 G-X-G motif; other site 1006007007519 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1006007007520 active site 1006007007521 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1006007007522 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007007523 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1006007007524 Class II fumarases; Region: Fumarase_classII; cd01362 1006007007525 active site 1006007007526 tetramer interface [polypeptide binding]; other site 1006007007527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 1006007007528 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 1006007007529 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1006007007530 active site 1006007007531 catalytic site [active] 1006007007532 substrate binding site [chemical binding]; other site 1006007007533 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 1006007007534 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1006007007535 Na binding site [ion binding]; other site 1006007007536 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 1006007007537 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007007538 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 1006007007539 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1006007007540 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007007541 Zn binding site [ion binding]; other site 1006007007542 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 1006007007543 Zn binding site [ion binding]; other site 1006007007544 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1006007007545 oligomeric interface; other site 1006007007546 putative active site [active] 1006007007547 homodimer interface [polypeptide binding]; other site 1006007007548 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 1006007007549 non-specific DNA binding site [nucleotide binding]; other site 1006007007550 salt bridge; other site 1006007007551 sequence-specific DNA binding site [nucleotide binding]; other site 1006007007552 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1006007007553 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 1006007007554 binding surface 1006007007555 TPR motif; other site 1006007007556 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1006007007557 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 1006007007558 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1006007007559 substrate binding pocket [chemical binding]; other site 1006007007560 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 1006007007561 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1006007007562 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1006007007563 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1006007007564 Amidinotransferase; Region: Amidinotransf; pfam02274 1006007007565 potential frameshift: common BLAST hit: gi|295704374|ref|YP_003597449.1| MmpL family transporter 1006007007566 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1006007007567 Protein of unknown function (DUF2653); Region: DUF2653; pfam10850 1006007007568 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1006007007569 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1006007007570 active site 1006007007571 Cold-inducible protein YdjO; Region: YdjO; pfam14169 1006007007572 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1006007007573 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1006007007574 putative catalytic cysteine [active] 1006007007575 gamma-glutamyl kinase; Provisional; Region: PRK13402 1006007007576 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 1006007007577 nucleotide binding site [chemical binding]; other site 1006007007578 homotetrameric interface [polypeptide binding]; other site 1006007007579 putative phosphate binding site [ion binding]; other site 1006007007580 putative allosteric binding site; other site 1006007007581 PUA domain; Region: PUA; pfam01472 1006007007582 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1006007007583 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1006007007584 CheB methylesterase; Region: CheB_methylest; pfam01339 1006007007585 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1006007007586 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1006007007587 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1006007007588 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1006007007589 PAS domain; Region: PAS_10; pfam13596 1006007007590 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1006007007591 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 1006007007592 putative active site [active] 1006007007593 heme pocket [chemical binding]; other site 1006007007594 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 1006007007595 dimer interface [polypeptide binding]; other site 1006007007596 phosphorylation site [posttranslational modification] 1006007007597 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 1006007007598 ATP binding site [chemical binding]; other site 1006007007599 Mg2+ binding site [ion binding]; other site 1006007007600 G-X-G motif; other site 1006007007601 B12 binding domain; Region: B12-binding_2; pfam02607 1006007007602 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cd02065 1006007007603 B12 binding site [chemical binding]; other site 1006007007604 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 1006007007605 AAA domain; Region: AAA_11; pfam13086 1006007007606 Walker A motif; other site 1006007007607 ATP binding site [chemical binding]; other site 1006007007608 AAA domain; Region: AAA_12; pfam13087 1006007007609 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1006007007610 putative active site [active] 1006007007611 catalytic site [active] 1006007007612 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007007613 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1006007007614 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007007615 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1006007007616 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007007617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1006007007618 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007007619 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007007620 Coenzyme A binding pocket [chemical binding]; other site 1006007007621 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 1006007007622 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1006007007623 Cold-inducible protein YdjO; Region: YdjO; pfam14169 1006007007624 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007007625 MarR family; Region: MarR; pfam01047 1006007007626 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1006007007627 DNA polymerase IV; Validated; Region: PRK01810 1006007007628 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1006007007629 active site 1006007007630 DNA binding site [nucleotide binding] 1006007007631 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1006007007632 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1006007007633 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1006007007634 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007007635 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1006007007636 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1006007007637 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1006007007638 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1006007007639 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1006007007640 Walker A/P-loop; other site 1006007007641 ATP binding site [chemical binding]; other site 1006007007642 Q-loop/lid; other site 1006007007643 ABC transporter signature motif; other site 1006007007644 Walker B; other site 1006007007645 D-loop; other site 1006007007646 H-loop/switch region; other site 1006007007647 Predicted transcriptional regulators [Transcription]; Region: COG1725 1006007007648 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007007649 DNA-binding site [nucleotide binding]; DNA binding site 1006007007650 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007007651 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007007652 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 1006007007653 putative dimerization interface [polypeptide binding]; other site 1006007007654 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 1006007007655 putative substrate translocation pore; other site 1006007007656 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1006007007657 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1006007007658 pentamer interface [polypeptide binding]; other site 1006007007659 dodecaamer interface [polypeptide binding]; other site 1006007007660 Predicted membrane protein [Function unknown]; Region: COG1511 1006007007661 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1006007007662 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 1006007007663 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1006007007664 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1006007007665 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1006007007666 UbiA prenyltransferase family; Region: UbiA; pfam01040 1006007007667 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1006007007668 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 1006007007669 ATP binding site [chemical binding]; other site 1006007007670 putative Mg++ binding site [ion binding]; other site 1006007007671 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1006007007672 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 1006007007673 nucleotide binding region [chemical binding]; other site 1006007007674 ATP-binding site [chemical binding]; other site 1006007007675 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1006007007676 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1006007007677 Na binding site [ion binding]; other site 1006007007678 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1006007007679 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1006007007680 NAD(P) binding site [chemical binding]; other site 1006007007681 catalytic residues [active] 1006007007682 potential frameshift: common BLAST hit: gi|295704337|ref|YP_003597412.1| agmatinase 1006007007683 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1006007007684 active site 1006007007685 metal binding site [ion binding]; metal-binding site 1006007007686 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1006007007687 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 1006007007688 PAS domain; Region: PAS_9; pfam13426 1006007007689 putative active site [active] 1006007007690 heme pocket [chemical binding]; other site 1006007007691 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1006007007692 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 1006007007693 Walker A motif; other site 1006007007694 ATP binding site [chemical binding]; other site 1006007007695 Walker B motif; other site 1006007007696 arginine finger; other site 1006007007697 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1006007007698 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 1006007007699 ATP binding site [chemical binding]; other site 1006007007700 putative Mg++ binding site [ion binding]; other site 1006007007701 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 1006007007702 nucleotide binding region [chemical binding]; other site 1006007007703 ATP-binding site [chemical binding]; other site 1006007007704 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1006007007705 HRDC domain; Region: HRDC; pfam00570 1006007007706 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007007707 Heat induced stress protein YflT; Region: YflT; pfam11181 1006007007708 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1006007007709 DNA binding residues [nucleotide binding] 1006007007710 Predicted membrane protein [Function unknown]; Region: COG1289 1006007007711 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1006007007712 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1006007007713 VanW like protein; Region: VanW; pfam04294 1006007007714 potential frameshift: common BLAST hit: gi|295704324|ref|YP_003597399.1| ribosomal-protein-alanine acetyltransferase 1006007007715 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007007716 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007007717 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007007718 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1006007007719 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1006007007720 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1006007007721 Spore germination protein; Region: Spore_permease; pfam03845 1006007007722 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1006007007723 potential frameshift: common BLAST hit: gi|295704321|ref|YP_003597396.1| phospholipase D domain-containing protein 1006007007724 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1006007007725 PLD-like domain; Region: PLDc_2; pfam13091 1006007007726 putative active site [active] 1006007007727 catalytic site [active] 1006007007728 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1006007007729 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1006007007730 putative active site [active] 1006007007731 catalytic site [active] 1006007007732 Spore germination protein; Region: Spore_permease; cl17796 1006007007733 Spore germination protein; Region: Spore_permease; cl17796 1006007007734 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1006007007735 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007007736 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1006007007737 Regulatory protein YrvL; Region: YrvL; pfam14184 1006007007738 DNA topoisomerase III; Provisional; Region: PRK07726 1006007007739 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 1006007007740 active site 1006007007741 putative interdomain interaction site [polypeptide binding]; other site 1006007007742 putative metal-binding site [ion binding]; other site 1006007007743 putative nucleotide binding site [chemical binding]; other site 1006007007744 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 1006007007745 domain I; other site 1006007007746 DNA binding groove [nucleotide binding] 1006007007747 phosphate binding site [ion binding]; other site 1006007007748 domain II; other site 1006007007749 domain III; other site 1006007007750 nucleotide binding site [chemical binding]; other site 1006007007751 catalytic site [active] 1006007007752 domain IV; other site 1006007007753 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 1006007007754 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1006007007755 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1006007007756 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 1006007007757 FeS/SAM binding site; other site 1006007007758 Transcriptional regulator protein (SplA); Region: SplA; pfam11132 1006007007759 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007007760 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007007761 DNA binding site [nucleotide binding] 1006007007762 domain linker motif; other site 1006007007763 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 1006007007764 putative dimerization interface [polypeptide binding]; other site 1006007007765 putative ligand binding site [chemical binding]; other site 1006007007766 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1006007007767 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1006007007768 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1006007007769 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1006007007770 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007007771 Walker A/P-loop; other site 1006007007772 ATP binding site [chemical binding]; other site 1006007007773 Q-loop/lid; other site 1006007007774 ABC transporter signature motif; other site 1006007007775 Walker B; other site 1006007007776 D-loop; other site 1006007007777 H-loop/switch region; other site 1006007007778 Protein of unknown function (DUF2872); Region: DUF2872; cl11924 1006007007779 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1006007007780 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1006007007781 Spore germination protein; Region: Spore_permease; pfam03845 1006007007782 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1006007007783 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1006007007784 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1006007007785 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007007786 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007007787 ABC transporter; Region: ABC_tran_2; pfam12848 1006007007788 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007007789 EamA-like transporter family; Region: EamA; pfam00892 1006007007790 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1006007007791 EamA-like transporter family; Region: EamA; pfam00892 1006007007792 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1006007007793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007007794 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1006007007795 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1006007007796 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1006007007797 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 1006007007798 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007007799 putative substrate translocation pore; other site 1006007007800 Acylphosphatase; Region: Acylphosphatase; cl00551 1006007007801 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1006007007802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007007803 NAD(P) binding site [chemical binding]; other site 1006007007804 active site 1006007007805 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1006007007806 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 1006007007807 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1006007007808 putative active site [active] 1006007007809 catalytic triad [active] 1006007007810 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 1006007007811 PA/protease domain interface [polypeptide binding]; other site 1006007007812 putative integrin binding motif; other site 1006007007813 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 1006007007814 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1006007007815 hypothetical protein; Provisional; Region: PRK08582 1006007007816 S1_RPS1_repeat_hs4: 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_hs4; cd05692 1006007007817 RNA binding site [nucleotide binding]; other site 1006007007818 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1006007007819 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 1006007007820 homodimer interface [polypeptide binding]; other site 1006007007821 NAD binding pocket [chemical binding]; other site 1006007007822 ATP binding pocket [chemical binding]; other site 1006007007823 Mg binding site [ion binding]; other site 1006007007824 active-site loop [active] 1006007007825 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1006007007826 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1006007007827 active site 1006007007828 (T/H)XGH motif; other site 1006007007829 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1006007007830 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 1006007007831 active site 1006007007832 Isochorismatase family; Region: Isochorismatase; pfam00857 1006007007833 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 1006007007834 catalytic triad [active] 1006007007835 conserved cis-peptide bond; other site 1006007007836 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; cd02883 1006007007837 nudix motif; other site 1006007007838 hypothetical protein; Provisional; Region: PRK06185 1006007007839 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1006007007840 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007007841 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 1006007007842 non-specific DNA binding site [nucleotide binding]; other site 1006007007843 salt bridge; other site 1006007007844 sequence-specific DNA binding site [nucleotide binding]; other site 1006007007845 Anti-repressor SinI; Region: SinI; pfam08671 1006007007846 Anti-repressor SinI; Region: SinI; pfam08671 1006007007847 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1006007007848 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1006007007849 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; cl17355 1006007007850 DNA binding site [nucleotide binding] 1006007007851 DinB superfamily; Region: DinB_2; pfam12867 1006007007852 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 1006007007853 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 1006007007854 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1006007007855 active site 1006007007856 metal binding site [ion binding]; metal-binding site 1006007007857 Lysine efflux permease [General function prediction only]; Region: COG1279 1006007007858 potential frameshift: common BLAST hit: gi|294498953|ref|YP_003562653.1| GntR family transcriptional regulator, aminotransferase 1006007007859 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 1006007007860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007007861 DNA-binding site [nucleotide binding]; DNA binding site 1006007007862 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 1006007007863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007007864 homodimer interface [polypeptide binding]; other site 1006007007865 catalytic residue [active] 1006007007866 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 1006007007867 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007007868 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 1006007007869 dimerization interface [polypeptide binding]; other site 1006007007870 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 1006007007871 dimer interface [polypeptide binding]; other site 1006007007872 phosphorylation site [posttranslational modification] 1006007007873 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 1006007007874 ATP binding site [chemical binding]; other site 1006007007875 Mg2+ binding site [ion binding]; other site 1006007007876 G-X-G motif; other site 1006007007877 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007007878 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 1006007007879 active site 1006007007880 phosphorylation site [posttranslational modification] 1006007007881 intermolecular recognition site; other site 1006007007882 dimerization interface [polypeptide binding]; other site 1006007007883 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 1006007007884 DNA binding site [nucleotide binding] 1006007007885 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 1006007007886 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 1006007007887 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1006007007888 classical (c) SDRs; Region: SDR_c; cd05233 1006007007889 NAD(P) binding site [chemical binding]; other site 1006007007890 active site 1006007007891 azoreductase; Reviewed; Region: PRK00170 1006007007892 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1006007007893 Predicted transcriptional regulators [Transcription]; Region: COG1378 1006007007894 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 1006007007895 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 1006007007896 C-terminal domain interface [polypeptide binding]; other site 1006007007897 sugar binding site [chemical binding]; other site 1006007007898 hypothetical protein; Provisional; Region: PRK10621 1006007007899 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1006007007900 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1006007007901 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1006007007902 putative carbohydrate kinase; Provisional; Region: PRK10565 1006007007903 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1006007007904 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 1006007007905 putative substrate binding site [chemical binding]; other site 1006007007906 putative ATP binding site [chemical binding]; other site 1006007007907 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1006007007908 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 1006007007909 active site 1006007007910 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1006007007911 squalene/oxidosqualene cyclases; Region: squalene_cyclas; TIGR01787 1006007007912 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007007913 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007007914 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1006007007915 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1006007007916 Walker A/P-loop; other site 1006007007917 ATP binding site [chemical binding]; other site 1006007007918 Q-loop/lid; other site 1006007007919 ABC transporter signature motif; other site 1006007007920 Walker B; other site 1006007007921 D-loop; other site 1006007007922 H-loop/switch region; other site 1006007007923 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007007924 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007007925 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1006007007926 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1006007007927 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007007928 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1006007007929 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1006007007930 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1006007007931 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1006007007932 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1006007007933 EamA-like transporter family; Region: EamA; pfam00892 1006007007934 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1006007007935 EamA-like transporter family; Region: EamA; pfam00892 1006007007936 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1006007007937 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1006007007938 metal ion-dependent adhesion site (MIDAS); other site 1006007007939 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1006007007940 MoxR-like ATPases [General function prediction only]; Region: COG0714 1006007007941 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 1006007007942 Walker A motif; other site 1006007007943 Walker A motif; other site 1006007007944 ATP binding site [chemical binding]; other site 1006007007945 Walker B motif; other site 1006007007946 arginine finger; other site 1006007007947 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 1006007007948 RNA polymerase sigma factor; Provisional; Region: PRK12541 1006007007949 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007007950 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 1006007007951 DNA binding residues [nucleotide binding] 1006007007952 potential frameshift: common BLAST hit: gi|294498926|ref|YP_003562626.1| sigma-M negative effector 1006007007953 Putative zinc-finger; Region: zf-HC2; pfam13490 1006007007954 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 1006007007955 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007007956 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 1006007007957 non-specific DNA binding site [nucleotide binding]; other site 1006007007958 salt bridge; other site 1006007007959 sequence-specific DNA binding site [nucleotide binding]; other site 1006007007960 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1006007007961 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1006007007962 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 1006007007963 thiamine phosphate binding site [chemical binding]; other site 1006007007964 active site 1006007007965 pyrophosphate binding site [ion binding]; other site 1006007007966 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 1006007007967 substrate binding site [chemical binding]; other site 1006007007968 multimerization interface [polypeptide binding]; other site 1006007007969 ATP binding site [chemical binding]; other site 1006007007970 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 1006007007971 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007007972 putative substrate translocation pore; other site 1006007007973 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007007974 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007007975 QacR-like protein, C-terminal region; Region: TetR_C_5; pfam08360 1006007007976 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1006007007977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007007978 Coenzyme A binding pocket [chemical binding]; other site 1006007007979 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1006007007980 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1006007007981 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1006007007982 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1006007007983 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1006007007984 active site 1006007007985 DNA binding site [nucleotide binding] 1006007007986 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1006007007987 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 1006007007988 DNA interaction; other site 1006007007989 Metal-binding active site; metal-binding site 1006007007990 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1006007007991 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1006007007992 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1006007007993 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1006007007994 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1006007007995 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1006007007996 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1006007007997 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1006007007998 conserved cys residue [active] 1006007007999 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007008000 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007008001 DNA binding site [nucleotide binding] 1006007008002 domain linker motif; other site 1006007008003 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 1006007008004 dimerization interface [polypeptide binding]; other site 1006007008005 ligand binding site [chemical binding]; other site 1006007008006 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1006007008007 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007008008 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1006007008009 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1006007008010 Na2 binding site [ion binding]; other site 1006007008011 putative substrate binding site 1 [chemical binding]; other site 1006007008012 Na binding site 1 [ion binding]; other site 1006007008013 putative substrate binding site 2 [chemical binding]; other site 1006007008014 TspO/MBR family; Region: TspO_MBR; cl01379 1006007008015 Putative transcription activator [Transcription]; Region: TenA; COG0819 1006007008016 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1006007008017 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 1006007008018 NAD(P) binding site [chemical binding]; other site 1006007008019 catalytic residues [active] 1006007008020 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 1006007008021 dimerization interface [polypeptide binding]; other site 1006007008022 putative DNA binding site [nucleotide binding]; other site 1006007008023 putative Zn2+ binding site [ion binding]; other site 1006007008024 potential frameshift: common BLAST hit: gi|294498901|ref|YP_003562601.1| short-chain dehydrogenase 1006007008025 classical (c) SDRs; Region: SDR_c; cd05233 1006007008026 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1006007008027 NAD(P) binding site [chemical binding]; other site 1006007008028 active site 1006007008029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007008030 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007008031 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1006007008032 DNA binding residues [nucleotide binding] 1006007008033 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 1006007008034 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1006007008035 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 1006007008036 E-class dimer interface [polypeptide binding]; other site 1006007008037 P-class dimer interface [polypeptide binding]; other site 1006007008038 active site 1006007008039 Cu2+ binding site [ion binding]; other site 1006007008040 Zn2+ binding site [ion binding]; other site 1006007008041 YusW-like protein; Region: YusW; pfam14039 1006007008042 aspartate kinase; Reviewed; Region: PRK09034 1006007008043 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 1006007008044 putative catalytic residues [active] 1006007008045 putative nucleotide binding site [chemical binding]; other site 1006007008046 putative aspartate binding site [chemical binding]; other site 1006007008047 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 1006007008048 allosteric regulatory residue; other site 1006007008049 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1006007008050 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; cl00163 1006007008051 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 1006007008052 active site 1006007008053 P-loop; other site 1006007008054 phosphorylation site [posttranslational modification] 1006007008055 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1006007008056 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1006007008057 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1006007008058 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 1006007008059 putative substrate binding site [chemical binding]; other site 1006007008060 putative ATP binding site [chemical binding]; other site 1006007008061 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1006007008062 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1006007008063 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1006007008064 YolD-like protein; Region: YolD; pfam08863 1006007008065 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007008066 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007008067 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007008068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 1006007008069 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1006007008070 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1006007008071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 1006007008072 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007008073 ABC transporter; Region: ABC_tran; pfam00005 1006007008074 Q-loop/lid; other site 1006007008075 ABC transporter signature motif; other site 1006007008076 Walker B; other site 1006007008077 D-loop; other site 1006007008078 H-loop/switch region; other site 1006007008079 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 1006007008080 dimerization interface [polypeptide binding]; other site 1006007008081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007008082 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 1006007008083 dimer interface [polypeptide binding]; other site 1006007008084 phosphorylation site [posttranslational modification] 1006007008085 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 1006007008086 ATP binding site [chemical binding]; other site 1006007008087 Mg2+ binding site [ion binding]; other site 1006007008088 G-X-G motif; other site 1006007008089 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007008090 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 1006007008091 active site 1006007008092 phosphorylation site [posttranslational modification] 1006007008093 intermolecular recognition site; other site 1006007008094 dimerization interface [polypeptide binding]; other site 1006007008095 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 1006007008096 DNA binding site [nucleotide binding] 1006007008097 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 1006007008098 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 1006007008099 dimer interface [polypeptide binding]; other site 1006007008100 active site 1006007008101 CoA binding pocket [chemical binding]; other site 1006007008102 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1006007008103 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1006007008104 Walker A/P-loop; other site 1006007008105 ATP binding site [chemical binding]; other site 1006007008106 Q-loop/lid; other site 1006007008107 ABC transporter signature motif; other site 1006007008108 Walker B; other site 1006007008109 D-loop; other site 1006007008110 H-loop/switch region; other site 1006007008111 TOBE-like domain; Region: TOBE_3; pfam12857 1006007008112 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1006007008113 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 1006007008114 dimer interface [polypeptide binding]; other site 1006007008115 conserved gate region; other site 1006007008116 putative PBP binding loops; other site 1006007008117 ABC-ATPase subunit interface; other site 1006007008118 potential frameshift: common BLAST hit: gi|295704207|ref|YP_003597282.1| sulfate ABC transporter permease CysT 1006007008119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1006007008120 sulfate transport protein; Provisional; Region: cysT; CHL00187 1006007008121 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 1006007008122 dimer interface [polypeptide binding]; other site 1006007008123 conserved gate region; other site 1006007008124 putative PBP binding loops; other site 1006007008125 ABC-ATPase subunit interface; other site 1006007008126 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1006007008127 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 1006007008128 substrate binding pocket [chemical binding]; other site 1006007008129 membrane-bound complex binding site; other site 1006007008130 hinge residues; other site 1006007008131 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 1006007008132 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 1006007008133 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007008134 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 1006007008135 dimerization interface [polypeptide binding]; other site 1006007008136 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 1006007008137 dimer interface [polypeptide binding]; other site 1006007008138 phosphorylation site [posttranslational modification] 1006007008139 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 1006007008140 ATP binding site [chemical binding]; other site 1006007008141 Mg2+ binding site [ion binding]; other site 1006007008142 G-X-G motif; other site 1006007008143 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007008144 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 1006007008145 active site 1006007008146 phosphorylation site [posttranslational modification] 1006007008147 intermolecular recognition site; other site 1006007008148 dimerization interface [polypeptide binding]; other site 1006007008149 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 1006007008150 DNA binding site [nucleotide binding] 1006007008151 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1006007008152 tetramer interface; other site 1006007008153 active site 1006007008154 Predicted membrane protein [Function unknown]; Region: COG2246 1006007008155 GtrA-like protein; Region: GtrA; pfam04138 1006007008156 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1006007008157 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1006007008158 Ligand binding site; other site 1006007008159 Putative Catalytic site; other site 1006007008160 DXD motif; other site 1006007008161 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1006007008162 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1006007008163 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007008164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007008165 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007008166 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1006007008167 LrgA family; Region: LrgA; cl00608 1006007008168 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007008169 MarR family; Region: MarR; pfam01047 1006007008170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007008171 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007008172 Coenzyme A binding pocket [chemical binding]; other site 1006007008173 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1006007008174 dimanganese center [ion binding]; other site 1006007008175 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 1006007008176 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1006007008177 PLD-like domain; Region: PLDc_2; pfam13091 1006007008178 putative active site [active] 1006007008179 catalytic site [active] 1006007008180 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1006007008181 putative active site [active] 1006007008182 catalytic site [active] 1006007008183 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1006007008184 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1006007008185 potential frameshift: common BLAST hit: gi|295704188|ref|YP_003597263.1| tetrahydrofolate dehydrogenase/cyclohydrolase domain-containing 1006007008186 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1006007008187 NADP binding site [chemical binding]; other site 1006007008188 homodimer interface [polypeptide binding]; other site 1006007008189 substrate binding site [chemical binding]; other site 1006007008190 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1006007008191 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1006007008192 Staygreen protein; Region: Staygreen; pfam12638 1006007008193 glutamate synthases, NADH/NADPH, small subunit; Region: GOGAT_sm_gam; TIGR01317 1006007008194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1006007008195 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1006007008196 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 1006007008197 active site 1006007008198 dimer interface [polypeptide binding]; other site 1006007008199 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1006007008200 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 1006007008201 active site 1006007008202 FMN binding site [chemical binding]; other site 1006007008203 substrate binding site [chemical binding]; other site 1006007008204 3Fe-4S cluster binding site [ion binding]; other site 1006007008205 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 1006007008206 domain interface; other site 1006007008207 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007008208 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007008209 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 1006007008210 putative dimerization interface [polypeptide binding]; other site 1006007008211 Protein of unknown function (DUF3900); Region: DUF3900; pfam13039 1006007008212 Domain of unknown function (DUF3898); Region: DUF3898; pfam13037 1006007008213 Small acid-soluble spore protein H family; Region: SspH; pfam08141 1006007008214 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1006007008215 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007008216 DNA binding residues [nucleotide binding] 1006007008217 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1006007008218 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1006007008219 Protein of unknown function (DUF867); Region: DUF867; pfam05908 1006007008220 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1006007008221 UbiA prenyltransferase family; Region: UbiA; pfam01040 1006007008222 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1006007008223 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 1006007008224 putative substrate binding site [chemical binding]; other site 1006007008225 putative ATP binding site [chemical binding]; other site 1006007008226 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1006007008227 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 1006007008228 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1006007008229 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1006007008230 catalytic residue [active] 1006007008231 Predicted membrane protein [Function unknown]; Region: COG3428 1006007008232 Bacterial PH domain; Region: DUF304; pfam03703 1006007008233 Bacterial PH domain; Region: DUF304; pfam03703 1006007008234 Uncharacterized conserved protein [Function unknown]; Region: COG3402 1006007008235 ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains; Region: ACT_MalLac-Enz; cd04887 1006007008236 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1006007008237 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1006007008238 Malic enzyme, NAD binding domain; Region: Malic_M; smart00919 1006007008239 NAD(P) binding pocket [chemical binding]; other site 1006007008240 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1006007008241 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1006007008242 Cytochrome P450; Region: p450; cl12078 1006007008243 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1006007008244 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007008245 Coenzyme A binding pocket [chemical binding]; other site 1006007008246 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007008247 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1006007008248 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 1006007008249 putative substrate translocation pore; other site 1006007008250 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1006007008251 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 1006007008252 active site 1006007008253 trimer interface [polypeptide binding]; other site 1006007008254 allosteric site; other site 1006007008255 active site lid [active] 1006007008256 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1006007008257 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1006007008258 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1006007008259 NAD(P) binding pocket [chemical binding]; other site 1006007008260 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 1006007008261 active site 1006007008262 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1006007008263 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1006007008264 active site 1006007008265 intersubunit interface [polypeptide binding]; other site 1006007008266 catalytic residue [active] 1006007008267 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 1006007008268 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1006007008269 putative ligand binding site [chemical binding]; other site 1006007008270 putative NAD binding site [chemical binding]; other site 1006007008271 catalytic site [active] 1006007008272 glucose-6-phosphate isomerase; Provisional; Region: PRK04190 1006007008273 Glucose-6-phosphate isomerase (GPI); Region: GPI; pfam06560 1006007008274 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1006007008275 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 1006007008276 N- and C-terminal domain interface [polypeptide binding]; other site 1006007008277 active site 1006007008278 MgATP binding site [chemical binding]; other site 1006007008279 catalytic site [active] 1006007008280 metal binding site [ion binding]; metal-binding site 1006007008281 xylulose binding site [chemical binding]; other site 1006007008282 putative homodimer interface [polypeptide binding]; other site 1006007008283 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1006007008284 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007008285 DNA-binding site [nucleotide binding]; DNA binding site 1006007008286 UTRA domain; Region: UTRA; pfam07702 1006007008287 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1006007008288 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1006007008289 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 1006007008290 amidase catalytic site [active] 1006007008291 Zn binding residues [ion binding]; other site 1006007008292 substrate binding site [chemical binding]; other site 1006007008293 3-hydroxyanthranilic acid dioxygenase; Region: 3-HAO; cl17399 1006007008294 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1006007008295 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 1006007008296 active site 1006007008297 metal binding site [ion binding]; metal-binding site 1006007008298 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1006007008299 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1006007008300 active site 1006007008301 non-prolyl cis peptide bond; other site 1006007008302 Riboflavin kinase; Region: Flavokinase; cl03312 1006007008303 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1006007008304 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1006007008305 Walker A/P-loop; other site 1006007008306 ATP binding site [chemical binding]; other site 1006007008307 Q-loop/lid; other site 1006007008308 ABC transporter signature motif; other site 1006007008309 Walker B; other site 1006007008310 D-loop; other site 1006007008311 H-loop/switch region; other site 1006007008312 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 1006007008313 dimer interface [polypeptide binding]; other site 1006007008314 conserved gate region; other site 1006007008315 putative PBP binding loops; other site 1006007008316 ABC-ATPase subunit interface; other site 1006007008317 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1006007008318 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 1006007008319 dimer interface [polypeptide binding]; other site 1006007008320 conserved gate region; other site 1006007008321 putative PBP binding loops; other site 1006007008322 ABC-ATPase subunit interface; other site 1006007008323 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1006007008324 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 1006007008325 substrate binding pocket [chemical binding]; other site 1006007008326 membrane-bound complex binding site; other site 1006007008327 hinge residues; other site 1006007008328 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 1006007008329 catalytic residues [active] 1006007008330 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007008331 Coenzyme A binding pocket [chemical binding]; other site 1006007008332 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1006007008333 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1006007008334 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 1006007008335 motif II; other site 1006007008336 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 1006007008337 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1006007008338 malate dehydrogenase; Provisional; Region: PRK13529 1006007008339 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1006007008340 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1006007008341 NAD(P) binding site [chemical binding]; other site 1006007008342 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1006007008343 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 1006007008344 putative substrate translocation pore; other site 1006007008345 POT family; Region: PTR2; cl17359 1006007008346 allantoinase; Provisional; Region: PRK06189 1006007008347 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 1006007008348 active site 1006007008349 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 1006007008350 dimer interface [polypeptide binding]; other site 1006007008351 phosphorylation site [posttranslational modification] 1006007008352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1006007008353 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 1006007008354 ATP binding site [chemical binding]; other site 1006007008355 Mg2+ binding site [ion binding]; other site 1006007008356 G-X-G motif; other site 1006007008357 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007008358 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 1006007008359 active site 1006007008360 phosphorylation site [posttranslational modification] 1006007008361 intermolecular recognition site; other site 1006007008362 dimerization interface [polypeptide binding]; other site 1006007008363 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 1006007008364 DNA binding site [nucleotide binding] 1006007008365 SurA N-terminal domain; Region: SurA_N; pfam09312 1006007008366 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1006007008367 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1006007008368 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1006007008369 S-methylmethionine transporter; Provisional; Region: PRK11387 1006007008370 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1006007008371 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1006007008372 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007008373 DNA-binding site [nucleotide binding]; DNA binding site 1006007008374 FCD domain; Region: FCD; pfam07729 1006007008375 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1006007008376 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1006007008377 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 1006007008378 SelR domain; Region: SelR; pfam01641 1006007008379 Uncharacterized conserved protein (COG2071); Region: DUF2071; pfam09844 1006007008380 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1006007008381 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1006007008382 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 1006007008383 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1006007008384 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 1006007008385 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1006007008386 ligand binding site [chemical binding]; other site 1006007008387 flagellar motor protein MotA; Validated; Region: PRK08124 1006007008388 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1006007008389 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1006007008390 active site 1006007008391 ATP binding site [chemical binding]; other site 1006007008392 substrate binding site [chemical binding]; other site 1006007008393 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1006007008394 Cytochrome P450; Region: p450; cl12078 1006007008395 ALDH subfamily: ALDH families 1and 2, including 10-formyltetrahydrofolate dehydrogenase, NAD+-dependent retinal dehydrogenase 1 and related proteins; Region: ALDH_F1-2_Ald2-like; cd07091 1006007008396 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1006007008397 NAD(P) binding site [chemical binding]; other site 1006007008398 catalytic residues [active] 1006007008399 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1006007008400 carbohydrate binding site [chemical binding]; other site 1006007008401 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1006007008402 carbohydrate binding site [chemical binding]; other site 1006007008403 pullulanase, type I; Region: pulA_typeI; TIGR02104 1006007008404 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 1006007008405 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 1006007008406 Ca binding site [ion binding]; other site 1006007008407 active site 1006007008408 catalytic site [active] 1006007008409 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1006007008410 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1006007008411 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1006007008412 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 1006007008413 dimer interface [polypeptide binding]; other site 1006007008414 phosphorylation site [posttranslational modification] 1006007008415 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 1006007008416 ATP binding site [chemical binding]; other site 1006007008417 Mg2+ binding site [ion binding]; other site 1006007008418 G-X-G motif; other site 1006007008419 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1006007008420 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 1006007008421 putative integrin binding motif; other site 1006007008422 PA/protease domain interface [polypeptide binding]; other site 1006007008423 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1006007008424 Peptidase family M28; Region: Peptidase_M28; pfam04389 1006007008425 metal binding site [ion binding]; metal-binding site 1006007008426 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1006007008427 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1006007008428 TrkA-C domain; Region: TrkA_C; pfam02080 1006007008429 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1006007008430 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1006007008431 NodB motif; other site 1006007008432 active site 1006007008433 catalytic site [active] 1006007008434 metal binding site [ion binding]; metal-binding site 1006007008435 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 1006007008436 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 1006007008437 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1006007008438 Sulfatase; Region: Sulfatase; pfam00884 1006007008439 potential frameshift: common BLAST hit: gi|295704106|ref|YP_003597181.1| glycosyl transferase 1006007008440 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 1006007008441 active site 1006007008442 potential frameshift: common BLAST hit: gi|294498784|ref|YP_003562484.1| phytoene desaturase 1006007008443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1006007008444 phytoene desaturase; Region: crtI_fam; TIGR02734 1006007008445 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007008446 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1006007008447 classical (c) SDRs; Region: SDR_c; cd05233 1006007008448 NAD(P) binding site [chemical binding]; other site 1006007008449 active site 1006007008450 multidrug efflux protein; Reviewed; Region: PRK01766 1006007008451 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1006007008452 cation binding site [ion binding]; other site 1006007008453 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1006007008454 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1006007008455 Replication terminator protein; Region: RTP; pfam02334 1006007008456 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1006007008457 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1006007008458 putative dimer interface [polypeptide binding]; other site 1006007008459 Putative zinc-finger; Region: zf-HC2; pfam13490 1006007008460 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1006007008461 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1006007008462 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007008463 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 1006007008464 DNA binding residues [nucleotide binding] 1006007008465 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 1006007008466 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK07634 1006007008467 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1006007008468 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1006007008469 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 1006007008470 5'-3' exonuclease; Region: 53EXOc; smart00475 1006007008471 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1006007008472 active site 1006007008473 metal binding site 1 [ion binding]; metal-binding site 1006007008474 putative 5' ssDNA interaction site; other site 1006007008475 metal binding site 3; metal-binding site 1006007008476 metal binding site 2 [ion binding]; metal-binding site 1006007008477 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1006007008478 putative DNA binding site [nucleotide binding]; other site 1006007008479 putative metal binding site [ion binding]; other site 1006007008480 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1006007008481 GIY-YIG motif/motif A; other site 1006007008482 active site 1006007008483 catalytic site [active] 1006007008484 metal binding site [ion binding]; metal-binding site 1006007008485 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 1006007008486 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1006007008487 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1006007008488 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1006007008489 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1006007008490 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1006007008491 helix_turn_helix, mercury resistance; Region: HTH_MERR; smart00422 1006007008492 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007008493 DNA binding residues [nucleotide binding] 1006007008494 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1006007008495 EamA-like transporter family; Region: EamA; pfam00892 1006007008496 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1006007008497 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 1006007008498 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 1006007008499 catalytic core [active] 1006007008500 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1006007008501 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 1006007008502 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1006007008503 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 1006007008504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007008505 homodimer interface [polypeptide binding]; other site 1006007008506 catalytic residue [active] 1006007008507 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1006007008508 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 1006007008509 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1006007008510 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 1006007008511 putative binding site residues; other site 1006007008512 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 1006007008513 catalytic residues [active] 1006007008514 YpjP-like protein; Region: YpjP; pfam14005 1006007008515 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 1006007008516 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 1006007008517 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1006007008518 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1006007008519 NodB motif; other site 1006007008520 active site 1006007008521 catalytic site [active] 1006007008522 Zn binding site [ion binding]; other site 1006007008523 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1006007008524 Virulence factor; Region: Virulence_fact; pfam13769 1006007008525 HEAT repeats; Region: HEAT_2; pfam13646 1006007008526 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 1006007008527 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1006007008528 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007008529 Walker A/P-loop; other site 1006007008530 ATP binding site [chemical binding]; other site 1006007008531 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007008532 ABC transporter signature motif; other site 1006007008533 Walker B; other site 1006007008534 D-loop; other site 1006007008535 ABC transporter; Region: ABC_tran_2; pfam12848 1006007008536 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007008537 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1006007008538 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1006007008539 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 1006007008540 catalytic residues [active] 1006007008541 dimer interface [polypeptide binding]; other site 1006007008542 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1006007008543 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1006007008544 Potassium binding sites [ion binding]; other site 1006007008545 Cesium cation binding sites [ion binding]; other site 1006007008546 Homoserine O-succinyltransferase; Region: HTS; pfam04204 1006007008547 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1006007008548 proposed active site lysine [active] 1006007008549 conserved cys residue [active] 1006007008550 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1006007008551 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1006007008552 NodB motif; other site 1006007008553 active site 1006007008554 catalytic site [active] 1006007008555 metal binding site [ion binding]; metal-binding site 1006007008556 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1006007008557 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007008558 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 1006007008559 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1006007008560 active site 1006007008561 motif I; other site 1006007008562 motif II; other site 1006007008563 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 1006007008564 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1006007008565 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 1006007008566 active site residue [active] 1006007008567 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 1006007008568 active site residue [active] 1006007008569 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 1006007008570 Mor transcription activator family; Region: Mor; cl02360 1006007008571 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1006007008572 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 1006007008573 S-adenosylmethionine binding site [chemical binding]; other site 1006007008574 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 1006007008575 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007008576 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 1006007008577 non-specific DNA binding site [nucleotide binding]; other site 1006007008578 salt bridge; other site 1006007008579 sequence-specific DNA binding site [nucleotide binding]; other site 1006007008580 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 1006007008581 binding surface 1006007008582 TPR motif; other site 1006007008583 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1006007008584 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1006007008585 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 1006007008586 catalytic motif [active] 1006007008587 Zn binding site [ion binding]; other site 1006007008588 RibD C-terminal domain; Region: RibD_C; cl17279 1006007008589 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 1006007008590 dimerization interface [polypeptide binding]; other site 1006007008591 active site 1006007008592 Predicted transcriptional regulators [Transcription]; Region: COG1733 1006007008593 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1006007008594 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 1006007008595 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007008596 putative substrate translocation pore; other site 1006007008597 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1006007008598 tartrate dehydrogenase; Provisional; Region: PRK08194 1006007008599 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1006007008600 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1006007008601 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1006007008602 Predicted permeases [General function prediction only]; Region: COG0679 1006007008603 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1006007008604 Predicted membrane protein [Function unknown]; Region: COG2323 1006007008605 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_33; cd04692 1006007008606 nudix motif; other site 1006007008607 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 1006007008608 CoenzymeA binding site [chemical binding]; other site 1006007008609 subunit interaction site [polypeptide binding]; other site 1006007008610 PHB binding site; other site 1006007008611 DNA topoisomerase III; Provisional; Region: PRK07726 1006007008612 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 1006007008613 active site 1006007008614 putative interdomain interaction site [polypeptide binding]; other site 1006007008615 putative metal-binding site [ion binding]; other site 1006007008616 putative nucleotide binding site [chemical binding]; other site 1006007008617 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 1006007008618 domain I; other site 1006007008619 DNA binding groove [nucleotide binding] 1006007008620 phosphate binding site [ion binding]; other site 1006007008621 domain II; other site 1006007008622 domain III; other site 1006007008623 nucleotide binding site [chemical binding]; other site 1006007008624 catalytic site [active] 1006007008625 domain IV; other site 1006007008626 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1006007008627 arsenical pump membrane protein; Provisional; Region: PRK15445 1006007008628 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1006007008629 transmembrane helices; other site 1006007008630 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 1006007008631 dimerization interface [polypeptide binding]; other site 1006007008632 putative DNA binding site [nucleotide binding]; other site 1006007008633 putative Zn2+ binding site [ion binding]; other site 1006007008634 YibE/F-like protein; Region: YibE_F; pfam07907 1006007008635 YibE/F-like protein; Region: YibE_F; pfam07907 1006007008636 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007008637 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1006007008638 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 1006007008639 catalytic loop [active] 1006007008640 iron binding site [ion binding]; other site 1006007008641 D-galactonate transporter; Region: 2A0114; TIGR00893 1006007008642 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 1006007008643 putative substrate translocation pore; other site 1006007008644 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 1006007008645 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 1006007008646 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1006007008647 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 1006007008648 metal-binding site [ion binding] 1006007008649 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1006007008650 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 1006007008651 metal-binding site [ion binding] 1006007008652 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1006007008653 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1006007008654 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 1006007008655 metal-binding site [ion binding] 1006007008656 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 1006007008657 putative homodimer interface [polypeptide binding]; other site 1006007008658 putative homotetramer interface [polypeptide binding]; other site 1006007008659 allosteric switch controlling residues; other site 1006007008660 putative metal binding site [ion binding]; other site 1006007008661 putative homodimer-homodimer interface [polypeptide binding]; other site 1006007008662 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007008663 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 1006007008664 active site 1006007008665 phosphorylation site [posttranslational modification] 1006007008666 intermolecular recognition site; other site 1006007008667 dimerization interface [polypeptide binding]; other site 1006007008668 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 1006007008669 DNA binding site [nucleotide binding] 1006007008670 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007008671 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 1006007008672 dimerization interface [polypeptide binding]; other site 1006007008673 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 1006007008674 dimer interface [polypeptide binding]; other site 1006007008675 phosphorylation site [posttranslational modification] 1006007008676 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 1006007008677 ATP binding site [chemical binding]; other site 1006007008678 Mg2+ binding site [ion binding]; other site 1006007008679 G-X-G motif; other site 1006007008680 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 1006007008681 Ligand Binding Site [chemical binding]; other site 1006007008682 IDEAL domain; Region: IDEAL; pfam08858 1006007008683 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1006007008684 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1006007008685 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1006007008686 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 1006007008687 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1006007008688 putative substrate translocation pore; other site 1006007008689 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1006007008690 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1006007008691 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1006007008692 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1006007008693 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1006007008694 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1006007008695 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1006007008696 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1006007008697 altronate oxidoreductase; Provisional; Region: PRK03643 1006007008698 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1006007008699 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1006007008700 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007008701 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007008702 DNA binding site [nucleotide binding] 1006007008703 domain linker motif; other site 1006007008704 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 1006007008705 dimerization interface [polypeptide binding]; other site 1006007008706 ligand binding site [chemical binding]; other site 1006007008707 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1006007008708 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 1006007008709 Glucuronate isomerase; Region: UxaC; pfam02614 1006007008710 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1006007008711 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 1006007008712 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1006007008713 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1006007008714 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1006007008715 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007008716 active site 1006007008717 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007008718 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007008719 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1006007008720 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1006007008721 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1006007008722 Spore germination protein; Region: Spore_permease; cl17796 1006007008723 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 1006007008724 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1006007008725 catalytic residue [active] 1006007008726 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1006007008727 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1006007008728 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 1006007008729 Walker A motif; other site 1006007008730 ATP binding site [chemical binding]; other site 1006007008731 Walker B motif; other site 1006007008732 arginine finger; other site 1006007008733 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1006007008734 dihydrolipoamide dehydrogenase; Validated; Region: acoL; PRK06912 1006007008735 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1006007008736 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007008737 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1006007008738 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1006007008739 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 1006007008740 E3 interaction surface; other site 1006007008741 lipoyl attachment site [posttranslational modification]; other site 1006007008742 e3 binding domain; Region: E3_binding; pfam02817 1006007008743 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1006007008744 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 1006007008745 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 1006007008746 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1006007008747 transmembrane helices; other site 1006007008748 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1006007008749 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1006007008750 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1006007008751 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1006007008752 active site 1006007008753 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1006007008754 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1006007008755 oxidoreductase; Provisional; Region: PRK07985 1006007008756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007008757 NAD(P) binding site [chemical binding]; other site 1006007008758 active site 1006007008759 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 1006007008760 Ligand Binding Site [chemical binding]; other site 1006007008761 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 1006007008762 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 1006007008763 Subunit I/III interface [polypeptide binding]; other site 1006007008764 Subunit III/IV interface [polypeptide binding]; other site 1006007008765 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1006007008766 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 1006007008767 D-pathway; other site 1006007008768 Putative ubiquinol binding site [chemical binding]; other site 1006007008769 Low-spin heme (heme b) binding site [chemical binding]; other site 1006007008770 Putative water exit pathway; other site 1006007008771 Binuclear center (heme o3/CuB) [ion binding]; other site 1006007008772 K-pathway; other site 1006007008773 Putative proton exit pathway; other site 1006007008774 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1006007008775 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1006007008776 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007008777 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007008778 Cytochrome P450; Region: p450; cl12078 1006007008779 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1006007008780 FOG: CBS domain [General function prediction only]; Region: COG0517 1006007008781 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 1006007008782 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1006007008783 active site 1006007008784 catalytic residues [active] 1006007008785 metal-dependent hydrolase; Provisional; Region: PRK13291 1006007008786 DinB superfamily; Region: DinB_2; pfam12867 1006007008787 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1006007008788 active site 1006007008789 intersubunit interactions; other site 1006007008790 catalytic residue [active] 1006007008791 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 1006007008792 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1006007008793 tetrameric interface [polypeptide binding]; other site 1006007008794 activator binding site; other site 1006007008795 NADP binding site [chemical binding]; other site 1006007008796 substrate binding site [chemical binding]; other site 1006007008797 catalytic residues [active] 1006007008798 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 1006007008799 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1006007008800 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1006007008801 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 1006007008802 putative substrate translocation pore; other site 1006007008803 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007008804 Coenzyme A binding pocket [chemical binding]; other site 1006007008805 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 1006007008806 putative deacylase active site [active] 1006007008807 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1006007008808 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1006007008809 Walker A/P-loop; other site 1006007008810 ATP binding site [chemical binding]; other site 1006007008811 Q-loop/lid; other site 1006007008812 ABC transporter signature motif; other site 1006007008813 Walker B; other site 1006007008814 D-loop; other site 1006007008815 H-loop/switch region; other site 1006007008816 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1006007008817 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1006007008818 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1006007008819 Walker A/P-loop; other site 1006007008820 ATP binding site [chemical binding]; other site 1006007008821 Q-loop/lid; other site 1006007008822 ABC transporter signature motif; other site 1006007008823 Walker B; other site 1006007008824 D-loop; other site 1006007008825 H-loop/switch region; other site 1006007008826 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1006007008827 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1006007008828 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1006007008829 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 1006007008830 dimer interface [polypeptide binding]; other site 1006007008831 conserved gate region; other site 1006007008832 putative PBP binding loops; other site 1006007008833 ABC-ATPase subunit interface; other site 1006007008834 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1006007008835 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 1006007008836 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1006007008837 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1006007008838 catalytic triad [active] 1006007008839 phosphoenolpyruvate synthase; Validated; Region: PRK06241 1006007008840 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1006007008841 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1006007008842 AAA domain; Region: AAA_30; pfam13604 1006007008843 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1006007008844 AAA domain; Region: AAA_12; pfam13087 1006007008845 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 1006007008846 YolD-like protein; Region: YolD; pfam08863 1006007008847 DNA polymerase IV; Reviewed; Region: PRK03103 1006007008848 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1006007008849 active site 1006007008850 DNA binding site [nucleotide binding] 1006007008851 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1006007008852 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1006007008853 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 1006007008854 putative substrate translocation pore; other site 1006007008855 hypothetical protein; Validated; Region: PRK06201 1006007008856 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1006007008857 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1006007008858 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1006007008859 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 1006007008860 putative active site [active] 1006007008861 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1006007008862 Citrate transporter; Region: CitMHS; pfam03600 1006007008863 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1006007008864 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1006007008865 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1006007008866 Predicted permeases [General function prediction only]; Region: COG0701 1006007008867 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 1006007008868 threonyl-tRNA synthetase; Reviewed; Region: PRK12444 1006007008869 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 1006007008870 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1006007008871 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 1006007008872 active site 1006007008873 dimer interface [polypeptide binding]; other site 1006007008874 motif 1; other site 1006007008875 motif 2; other site 1006007008876 motif 3; other site 1006007008877 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 1006007008878 anticodon binding site; other site 1006007008879 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 1006007008880 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1006007008881 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1006007008882 DNA binding residues [nucleotide binding] 1006007008883 dimer interface [polypeptide binding]; other site 1006007008884 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1006007008885 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1006007008886 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1006007008887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007008888 NAD(P) binding site [chemical binding]; other site 1006007008889 active site 1006007008890 Predicted transcriptional regulators [Transcription]; Region: COG1733 1006007008891 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 1006007008892 dimerization interface [polypeptide binding]; other site 1006007008893 putative Zn2+ binding site [ion binding]; other site 1006007008894 putative DNA binding site [nucleotide binding]; other site 1006007008895 Protein of unknown function (DUF2711); Region: DUF2711; pfam10924 1006007008896 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 1006007008897 active site 1006007008898 putative catalytic site [active] 1006007008899 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1006007008900 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1006007008901 recombinase A; Provisional; Region: recA; PRK09354 1006007008902 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 1006007008903 hexamer interface [polypeptide binding]; other site 1006007008904 Walker A motif; other site 1006007008905 ATP binding site [chemical binding]; other site 1006007008906 Walker B motif; other site 1006007008907 dihydroxyacetone kinase; Provisional; Region: PRK14479 1006007008908 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 1006007008909 DAK2 domain; Region: Dak2; pfam02734 1006007008910 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1006007008911 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1006007008912 dimer interface [polypeptide binding]; other site 1006007008913 active site 1006007008914 metal binding site [ion binding]; metal-binding site 1006007008915 potential frameshift: common BLAST hit: gi|294498568|ref|YP_003562268.1| transcriptional regulator 1006007008916 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1006007008917 Sensory domain found in PocR; Region: PocR; pfam10114 1006007008918 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1006007008919 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007008920 potential frameshift: common BLAST hit: gi|294498501|ref|YP_003562201.1| carbon-nitrogen family hydrolase 1006007008921 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1006007008922 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1006007008923 active site 1006007008924 catalytic triad [active] 1006007008925 dimer interface [polypeptide binding]; other site 1006007008926 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1006007008927 EamA-like transporter family; Region: EamA; pfam00892 1006007008928 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1006007008929 EamA-like transporter family; Region: EamA; pfam00892 1006007008930 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 1006007008931 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_20; cd07254 1006007008932 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007008933 putative metal binding site [ion binding]; other site 1006007008934 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 1006007008935 dimerization interface [polypeptide binding]; other site 1006007008936 putative DNA binding site [nucleotide binding]; other site 1006007008937 putative Zn2+ binding site [ion binding]; other site 1006007008938 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 1006007008939 dimerization interface [polypeptide binding]; other site 1006007008940 putative DNA binding site [nucleotide binding]; other site 1006007008941 putative Zn2+ binding site [ion binding]; other site 1006007008942 arsenical pump membrane protein; Provisional; Region: PRK15445 1006007008943 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1006007008944 transmembrane helices; other site 1006007008945 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1006007008946 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1006007008947 active site 1006007008948 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 1006007008949 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007008950 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007008951 Coenzyme A binding pocket [chemical binding]; other site 1006007008952 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 1006007008953 S-adenosylmethionine binding site [chemical binding]; other site 1006007008954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 1006007008955 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1006007008956 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1006007008957 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1006007008958 Beta-lactamase; Region: Beta-lactamase; pfam00144 1006007008959 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007008960 MarR family; Region: MarR_2; pfam12802 1006007008961 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 1006007008962 Predicted membrane protein [Function unknown]; Region: COG2855 1006007008963 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 1006007008964 active site 1006007008965 catalytic residues [active] 1006007008966 metal binding site [ion binding]; metal-binding site 1006007008967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1006007008968 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1006007008969 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1006007008970 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007008971 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007008972 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 1006007008973 active site 1006007008974 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 1006007008975 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 1006007008976 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 1006007008977 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 1006007008978 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 1006007008979 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1006007008980 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1006007008981 acetolactate synthase; Reviewed; Region: PRK08322 1006007008982 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1006007008983 PYR/PP interface [polypeptide binding]; other site 1006007008984 dimer interface [polypeptide binding]; other site 1006007008985 TPP binding site [chemical binding]; other site 1006007008986 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1006007008987 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 1006007008988 TPP-binding site [chemical binding]; other site 1006007008989 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 1006007008990 DNA-binding site [nucleotide binding]; DNA binding site 1006007008991 RNA-binding motif; other site 1006007008992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007008993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007008994 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 1006007008995 dimerization interface [polypeptide binding]; other site 1006007008996 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1006007008997 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1006007008998 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 1006007008999 oligomer interface [polypeptide binding]; other site 1006007009000 DinB family; Region: DinB; cl17821 1006007009001 DinB superfamily; Region: DinB_2; pfam12867 1006007009002 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 1006007009003 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1006007009004 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1006007009005 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1006007009006 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 1006007009007 putative DNA binding site [nucleotide binding]; other site 1006007009008 putative Zn2+ binding site [ion binding]; other site 1006007009009 AsnC family; Region: AsnC_trans_reg; pfam01037 1006007009010 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1006007009011 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1006007009012 nucleotide binding site [chemical binding]; other site 1006007009013 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1006007009014 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1006007009015 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1006007009016 beta-galactosidase; Region: BGL; TIGR03356 1006007009017 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 1006007009018 active site 1006007009019 P-loop; other site 1006007009020 phosphorylation site [posttranslational modification] 1006007009021 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; cl00166 1006007009022 active site 1006007009023 methionine cluster; other site 1006007009024 phosphorylation site [posttranslational modification] 1006007009025 metal binding site [ion binding]; metal-binding site 1006007009026 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1006007009027 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007009028 DNA-binding site [nucleotide binding]; DNA binding site 1006007009029 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1006007009030 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 1006007009031 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007009032 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007009033 potential frameshift: common BLAST hit: gi|294498449|ref|YP_003562149.1| MmpL family transporter 1006007009034 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1006007009035 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1006007009036 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 1006007009037 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1006007009038 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1006007009039 acyl-activating enzyme (AAE) consensus motif; other site 1006007009040 AMP binding site [chemical binding]; other site 1006007009041 active site 1006007009042 CoA binding site [chemical binding]; other site 1006007009043 calcium/proton exchanger (cax); Region: cax; TIGR00378 1006007009044 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1006007009045 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1006007009046 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 1006007009047 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007009048 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1006007009049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007009050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1006007009051 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1006007009052 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1006007009053 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1006007009054 Spore germination protein; Region: Spore_permease; cl17796 1006007009055 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007009056 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007009057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007009058 Coenzyme A binding pocket [chemical binding]; other site 1006007009059 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; cd05120 1006007009060 Phosphotransferase enzyme family; Region: APH; pfam01636 1006007009061 active site 1006007009062 substrate binding site [chemical binding]; other site 1006007009063 ATP binding site [chemical binding]; other site 1006007009064 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12859 1006007009065 classical (c) SDRs; Region: SDR_c; cd05233 1006007009066 NAD(P) binding site [chemical binding]; other site 1006007009067 active site 1006007009068 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 1006007009069 S-adenosylmethionine binding site [chemical binding]; other site 1006007009070 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1006007009071 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1006007009072 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 1006007009073 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1006007009074 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1006007009075 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007009076 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007009077 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007009078 dimerization interface [polypeptide binding]; other site 1006007009079 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1006007009080 nucleotide binding site [chemical binding]; other site 1006007009081 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007009082 Coenzyme A binding pocket [chemical binding]; other site 1006007009083 DinB family; Region: DinB; cl17821 1006007009084 DinB superfamily; Region: DinB_2; pfam12867 1006007009085 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1006007009086 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 1006007009087 putative active site [active] 1006007009088 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1006007009089 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007009090 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007009091 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007009092 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007009093 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1006007009094 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1006007009095 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1006007009096 Cation efflux family; Region: Cation_efflux; pfam01545 1006007009097 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 1006007009098 nudix motif; other site 1006007009099 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 1006007009100 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007009101 putative substrate translocation pore; other site 1006007009102 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 1006007009103 putative substrate translocation pore; other site 1006007009104 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007009105 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007009106 phosphoenolpyruvate synthase; Validated; Region: PRK06241 1006007009107 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1006007009108 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1006007009109 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1006007009110 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 1006007009111 motif II; other site 1006007009112 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1006007009113 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1006007009114 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1006007009115 potential catalytic triad [active] 1006007009116 conserved cys residue [active] 1006007009117 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 1006007009118 putative DNA binding site [nucleotide binding]; other site 1006007009119 dimerization interface [polypeptide binding]; other site 1006007009120 putative Zn2+ binding site [ion binding]; other site 1006007009121 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 1006007009122 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1006007009123 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007009124 Coenzyme A binding pocket [chemical binding]; other site 1006007009125 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007009126 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007009127 MarR family; Region: MarR; pfam01047 1006007009128 Predicted membrane protein [Function unknown]; Region: COG2364 1006007009129 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1006007009130 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007009131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1006007009132 Coenzyme A binding pocket [chemical binding]; other site 1006007009133 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007009134 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007009135 potential frameshift: common BLAST hit: gi|295703741|ref|YP_003596816.1| putative uridine phosphorylase 1006007009136 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1006007009137 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 1006007009138 putative substrate translocation pore; other site 1006007009139 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007009140 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1006007009141 proposed catalytic triad [active] 1006007009142 active site nucleophile [active] 1006007009143 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1006007009144 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 1006007009145 Walker A motif; other site 1006007009146 ATP binding site [chemical binding]; other site 1006007009147 Walker B motif; other site 1006007009148 arginine finger; other site 1006007009149 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1006007009150 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1006007009151 proposed catalytic triad [active] 1006007009152 active site nucleophile [active] 1006007009153 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1006007009154 proposed catalytic triad [active] 1006007009155 active site nucleophile [active] 1006007009156 isoaspartyl dipeptidase; Provisional; Region: PRK10657 1006007009157 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 1006007009158 active site 1006007009159 Predicted membrane protein [Function unknown]; Region: COG1288 1006007009160 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1006007009161 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1006007009162 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 1006007009163 active site 1006007009164 tetramer interface [polypeptide binding]; other site 1006007009165 Agmatinase-like family; Region: Agmatinase-like; cd09990 1006007009166 active site 1006007009167 oligomer interface [polypeptide binding]; other site 1006007009168 Mn binding site [ion binding]; other site 1006007009169 imidazolonepropionase; Validated; Region: PRK09356 1006007009170 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1006007009171 active site 1006007009172 urocanate hydratase; Provisional; Region: PRK05414 1006007009173 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1006007009174 active sites [active] 1006007009175 tetramer interface [polypeptide binding]; other site 1006007009176 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 1006007009177 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1006007009178 active site 1006007009179 catalytic tetrad [active] 1006007009180 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 1006007009181 putative deacylase active site [active] 1006007009182 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 1006007009183 active site 1006007009184 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1006007009185 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1006007009186 active site 1006007009187 non-prolyl cis peptide bond; other site 1006007009188 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1006007009189 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1006007009190 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1006007009191 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 1006007009192 dimer interface [polypeptide binding]; other site 1006007009193 conserved gate region; other site 1006007009194 ABC-ATPase subunit interface; other site 1006007009195 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007009196 Q-loop/lid; other site 1006007009197 ABC transporter signature motif; other site 1006007009198 Walker B; other site 1006007009199 D-loop; other site 1006007009200 H-loop/switch region; other site 1006007009201 NIL domain; Region: NIL; pfam09383 1006007009202 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1006007009203 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1006007009204 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 1006007009205 ABC-ATPase subunit interface; other site 1006007009206 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1006007009207 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1006007009208 Walker A/P-loop; other site 1006007009209 ATP binding site [chemical binding]; other site 1006007009210 Q-loop/lid; other site 1006007009211 ABC transporter signature motif; other site 1006007009212 Walker B; other site 1006007009213 D-loop; other site 1006007009214 H-loop/switch region; other site 1006007009215 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 1006007009216 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1006007009217 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1006007009218 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 1006007009219 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1006007009220 substrate binding pocket [chemical binding]; other site 1006007009221 membrane-bound complex binding site; other site 1006007009222 hinge residues; other site 1006007009223 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 1006007009224 dimer interface [polypeptide binding]; other site 1006007009225 conserved gate region; other site 1006007009226 putative PBP binding loops; other site 1006007009227 ABC-ATPase subunit interface; other site 1006007009228 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1006007009229 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 1006007009230 dimer interface [polypeptide binding]; other site 1006007009231 conserved gate region; other site 1006007009232 putative PBP binding loops; other site 1006007009233 ABC-ATPase subunit interface; other site 1006007009234 Glycosyl hydrolases family 32 N-terminal domain; Region: Glyco_hydro_32N; pfam00251 1006007009235 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1006007009236 substrate binding [chemical binding]; other site 1006007009237 active site 1006007009238 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 1006007009239 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 1006007009240 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1006007009241 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1006007009242 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1006007009243 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 1006007009244 active pocket/dimerization site; other site 1006007009245 active site 1006007009246 phosphorylation site [posttranslational modification] 1006007009247 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 1006007009248 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1006007009249 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 1006007009250 Walker A motif; other site 1006007009251 ATP binding site [chemical binding]; other site 1006007009252 Walker B motif; other site 1006007009253 arginine finger; other site 1006007009254 Transcriptional antiterminator [Transcription]; Region: COG3933 1006007009255 PRD domain; Region: PRD; pfam00874 1006007009256 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 1006007009257 active pocket/dimerization site; other site 1006007009258 active site 1006007009259 phosphorylation site [posttranslational modification] 1006007009260 PRD domain; Region: PRD; pfam00874 1006007009261 Levansucrase/Invertase; Region: Glyco_hydro_68; pfam02435 1006007009262 active site 1006007009263 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1006007009264 hypothetical protein; Validated; Region: PRK00029 1006007009265 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1006007009266 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1006007009267 substrate binding [chemical binding]; other site 1006007009268 active site 1006007009269 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1006007009270 galactoside permease; Reviewed; Region: lacY; PRK09528 1006007009271 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 1006007009272 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007009273 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007009274 DNA binding site [nucleotide binding] 1006007009275 domain linker motif; other site 1006007009276 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 1006007009277 dimerization interface [polypeptide binding]; other site 1006007009278 ligand binding site [chemical binding]; other site 1006007009279 sodium binding site [ion binding]; other site 1006007009280 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1006007009281 putative transport protein YifK; Provisional; Region: PRK10746 1006007009282 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1006007009283 General stress protein [General function prediction only]; Region: GsiB; COG3729 1006007009284 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1006007009285 active site 1006007009286 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1006007009287 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1006007009288 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1006007009289 YpzG-like protein; Region: YpzG; pfam14139 1006007009290 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1006007009291 Spore germination protein; Region: Spore_permease; cl17796 1006007009292 LysE type translocator; Region: LysE; pfam01810 1006007009293 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1006007009294 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1006007009295 NAD binding site [chemical binding]; other site 1006007009296 catalytic residues [active] 1006007009297 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1006007009298 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1006007009299 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1006007009300 potential catalytic triad [active] 1006007009301 conserved cys residue [active] 1006007009302 benzoate transport; Region: 2A0115; TIGR00895 1006007009303 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 1006007009304 putative substrate translocation pore; other site 1006007009305 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 1006007009306 hexamer interface [polypeptide binding]; other site 1006007009307 RNA binding site [nucleotide binding]; other site 1006007009308 Histidine-zinc binding site [chemical binding]; other site 1006007009309 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1006007009310 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 1006007009311 NAD binding site [chemical binding]; other site 1006007009312 homodimer interface [polypeptide binding]; other site 1006007009313 active site 1006007009314 putative substrate binding site [chemical binding]; other site 1006007009315 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1006007009316 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 1006007009317 substrate-cofactor binding pocket; other site 1006007009318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007009319 catalytic residue [active] 1006007009320 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 1006007009321 putative substrate translocation pore; other site 1006007009322 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007009323 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 1006007009324 putative substrate translocation pore; other site 1006007009325 Ferritin-like domain; Region: Ferritin; pfam00210 1006007009326 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1006007009327 dinuclear metal binding motif [ion binding]; other site 1006007009328 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1006007009329 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1006007009330 substrate binding [chemical binding]; other site 1006007009331 active site 1006007009332 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1006007009333 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1006007009334 active site 1006007009335 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1006007009336 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 1006007009337 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 1006007009338 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 1006007009339 active site 1006007009340 motif I; other site 1006007009341 motif II; other site 1006007009342 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 1006007009343 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1006007009344 ligand binding site [chemical binding]; other site 1006007009345 flexible hinge region; other site 1006007009346 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 1006007009347 putative switch regulator; other site 1006007009348 non-specific DNA interactions [nucleotide binding]; other site 1006007009349 DNA binding site [nucleotide binding] 1006007009350 sequence specific DNA binding site [nucleotide binding]; other site 1006007009351 putative cAMP binding site [chemical binding]; other site 1006007009352 amino acid transporter; Region: 2A0306; TIGR00909 1006007009353 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1006007009354 LysE type translocator; Region: LysE; pfam01810 1006007009355 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007009356 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 1006007009357 active site 1006007009358 phosphorylation site [posttranslational modification] 1006007009359 intermolecular recognition site; other site 1006007009360 dimerization interface [polypeptide binding]; other site 1006007009361 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1006007009362 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1006007009363 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1006007009364 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1006007009365 CHASE3 domain; Region: CHASE3; pfam05227 1006007009366 HAMP domain; Region: HAMP; pfam00672 1006007009367 dimerization interface [polypeptide binding]; other site 1006007009368 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1006007009369 GAF domain; Region: GAF_2; pfam13185 1006007009370 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 1006007009371 dimer interface [polypeptide binding]; other site 1006007009372 phosphorylation site [posttranslational modification] 1006007009373 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 1006007009374 ATP binding site [chemical binding]; other site 1006007009375 Mg2+ binding site [ion binding]; other site 1006007009376 G-X-G motif; other site 1006007009377 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1006007009378 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 1006007009379 active site 1006007009380 phosphorylation site [posttranslational modification] 1006007009381 intermolecular recognition site; other site 1006007009382 dimerization interface [polypeptide binding]; other site 1006007009383 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 1006007009384 active site 1006007009385 domain interfaces; other site 1006007009386 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1006007009387 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1006007009388 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1006007009389 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 1006007009390 dimer interface [polypeptide binding]; other site 1006007009391 conserved gate region; other site 1006007009392 ABC-ATPase subunit interface; other site 1006007009393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007009394 Q-loop/lid; other site 1006007009395 ABC transporter signature motif; other site 1006007009396 Walker B; other site 1006007009397 D-loop; other site 1006007009398 H-loop/switch region; other site 1006007009399 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1006007009400 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1006007009401 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1006007009402 [2Fe-2S] cluster binding site [ion binding]; other site 1006007009403 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1006007009404 putative alpha subunit interface [polypeptide binding]; other site 1006007009405 putative active site [active] 1006007009406 putative substrate binding site [chemical binding]; other site 1006007009407 Fe binding site [ion binding]; other site 1006007009408 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1006007009409 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 1006007009410 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1006007009411 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1006007009412 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1006007009413 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1006007009414 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1006007009415 active site 1006007009416 dimer interface [polypeptide binding]; other site 1006007009417 magnesium binding site [ion binding]; other site 1006007009418 Predicted transcriptional regulators [Transcription]; Region: COG1733 1006007009419 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1006007009420 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1006007009421 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1006007009422 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1006007009423 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1006007009424 active site 2 [active] 1006007009425 active site 1 [active] 1006007009426 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 1006007009427 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1006007009428 active site 1006007009429 catalytic tetrad [active] 1006007009430 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1006007009431 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 1006007009432 putative substrate translocation pore; other site 1006007009433 methionine gamma-lyase; Provisional; Region: PRK06767 1006007009434 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 1006007009435 homodimer interface [polypeptide binding]; other site 1006007009436 substrate-cofactor binding pocket; other site 1006007009437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007009438 catalytic residue [active] 1006007009439 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1006007009440 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1006007009441 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1006007009442 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1006007009443 Walker A/P-loop; other site 1006007009444 ATP binding site [chemical binding]; other site 1006007009445 Q-loop/lid; other site 1006007009446 ABC transporter signature motif; other site 1006007009447 Walker B; other site 1006007009448 D-loop; other site 1006007009449 H-loop/switch region; other site 1006007009450 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1006007009451 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 1006007009452 putative ligand binding residues [chemical binding]; other site 1006007009453 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1006007009454 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 1006007009455 ABC-ATPase subunit interface; other site 1006007009456 dimer interface [polypeptide binding]; other site 1006007009457 putative PBP binding regions; other site 1006007009458 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1006007009459 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 1006007009460 ABC-ATPase subunit interface; other site 1006007009461 dimer interface [polypeptide binding]; other site 1006007009462 putative PBP binding regions; other site 1006007009463 Tumour necrosis factor receptor superfamily member 19; Region: RELT; pfam12606 1006007009464 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 1006007009465 non-specific DNA binding site [nucleotide binding]; other site 1006007009466 salt bridge; other site 1006007009467 sequence-specific DNA binding site [nucleotide binding]; other site 1006007009468 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007009469 MarR family; Region: MarR; pfam01047 1006007009470 MarR family; Region: MarR_2; cl17246 1006007009471 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1006007009472 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 1006007009473 putative substrate translocation pore; other site 1006007009474 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 1006007009475 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 1006007009476 E3 interaction surface; other site 1006007009477 lipoyl attachment site [posttranslational modification]; other site 1006007009478 HlyD family secretion protein; Region: HlyD_3; pfam13437 1006007009479 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007009480 MarR family; Region: MarR_2; pfam12802 1006007009481 Endonuclease I; Region: Endonuclease_1; pfam04231 1006007009482 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1006007009483 active site 1006007009484 catalytic residues [active] 1006007009485 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1006007009486 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1006007009487 catalytic residues [active] 1006007009488 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007009489 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007009490 short chain dehydrogenase; Provisional; Region: PRK06197 1006007009491 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1006007009492 putative NAD(P) binding site [chemical binding]; other site 1006007009493 active site 1006007009494 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1006007009495 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 1006007009496 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007009497 putative substrate translocation pore; other site 1006007009498 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 1006007009499 sugar efflux transporter; Region: 2A0120; TIGR00899 1006007009500 putative substrate translocation pore; other site 1006007009501 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1006007009502 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1006007009503 active site 1006007009504 tetramer interface; other site 1006007009505 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 1006007009506 glycosyltransferase, MGT family; Region: MGT; TIGR01426 1006007009507 active site 1006007009508 TDP-binding site; other site 1006007009509 acceptor substrate-binding pocket; other site 1006007009510 homodimer interface [polypeptide binding]; other site 1006007009511 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007009512 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1006007009513 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007009514 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 1006007009515 active site 1006007009516 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1006007009517 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1006007009518 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1006007009519 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1006007009520 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1006007009521 putative active site [active] 1006007009522 catalytic site [active] 1006007009523 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1006007009524 putative active site [active] 1006007009525 catalytic site [active] 1006007009526 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 1006007009527 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1006007009528 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 1006007009529 putative di-iron ligands [ion binding]; other site 1006007009530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1006007009531 Histidine kinase; Region: HisKA_3; pfam07730 1006007009532 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 1006007009533 ATP binding site [chemical binding]; other site 1006007009534 Mg2+ binding site [ion binding]; other site 1006007009535 G-X-G motif; other site 1006007009536 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1006007009537 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 1006007009538 active site 1006007009539 phosphorylation site [posttranslational modification] 1006007009540 intermolecular recognition site; other site 1006007009541 dimerization interface [polypeptide binding]; other site 1006007009542 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 1006007009543 DNA binding residues [nucleotide binding] 1006007009544 dimerization interface [polypeptide binding]; other site 1006007009545 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 1006007009546 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1006007009547 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1006007009548 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1006007009549 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1006007009550 Walker A/P-loop; other site 1006007009551 ATP binding site [chemical binding]; other site 1006007009552 Q-loop/lid; other site 1006007009553 ABC transporter signature motif; other site 1006007009554 Walker B; other site 1006007009555 D-loop; other site 1006007009556 H-loop/switch region; other site 1006007009557 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1006007009558 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 1006007009559 dimer interface [polypeptide binding]; other site 1006007009560 ABC-ATPase subunit interface; other site 1006007009561 putative PBP binding regions; other site 1006007009562 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1006007009563 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 1006007009564 ABC-ATPase subunit interface; other site 1006007009565 dimer interface [polypeptide binding]; other site 1006007009566 putative PBP binding regions; other site 1006007009567 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 1006007009568 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 1006007009569 siderophore binding site; other site 1006007009570 Predicted permeases [General function prediction only]; Region: COG0701 1006007009571 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 1006007009572 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1006007009573 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 1006007009574 PAS domain S-box; Region: sensory_box; TIGR00229 1006007009575 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 1006007009576 putative active site [active] 1006007009577 heme pocket [chemical binding]; other site 1006007009578 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1006007009579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1006007009580 metal binding site [ion binding]; metal-binding site 1006007009581 active site 1006007009582 I-site; other site 1006007009583 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 1006007009584 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007009585 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007009586 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1006007009587 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1006007009588 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1006007009589 Walker A/P-loop; other site 1006007009590 ATP binding site [chemical binding]; other site 1006007009591 Q-loop/lid; other site 1006007009592 ABC transporter signature motif; other site 1006007009593 Walker B; other site 1006007009594 D-loop; other site 1006007009595 H-loop/switch region; other site 1006007009596 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1006007009597 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007009598 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007009599 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1006007009600 dimer interface [polypeptide binding]; other site 1006007009601 catalytic triad [active] 1006007009602 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1006007009603 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1006007009604 peptide binding site [polypeptide binding]; other site 1006007009605 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1006007009606 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1006007009607 Walker A/P-loop; other site 1006007009608 ATP binding site [chemical binding]; other site 1006007009609 Q-loop/lid; other site 1006007009610 ABC transporter signature motif; other site 1006007009611 Walker B; other site 1006007009612 D-loop; other site 1006007009613 H-loop/switch region; other site 1006007009614 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1006007009615 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1006007009616 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 1006007009617 dimer interface [polypeptide binding]; other site 1006007009618 conserved gate region; other site 1006007009619 putative PBP binding loops; other site 1006007009620 ABC-ATPase subunit interface; other site 1006007009621 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1006007009622 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 1006007009623 dimer interface [polypeptide binding]; other site 1006007009624 conserved gate region; other site 1006007009625 putative PBP binding loops; other site 1006007009626 ABC-ATPase subunit interface; other site 1006007009627 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 1006007009628 SxDxEG motif; other site 1006007009629 active site 1006007009630 metal binding site [ion binding]; metal-binding site 1006007009631 homopentamer interface [polypeptide binding]; other site 1006007009632 putative uracil/xanthine transporter; Provisional; Region: PRK11412 1006007009633 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1006007009634 putative active site [active] 1006007009635 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 1006007009636 TPR repeat; Region: TPR_11; pfam13414 1006007009637 binding surface 1006007009638 TPR motif; other site 1006007009639 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 1006007009640 binding surface 1006007009641 TPR motif; other site 1006007009642 TPR repeat; Region: TPR_11; pfam13414 1006007009643 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 1006007009644 binding surface 1006007009645 TPR motif; other site 1006007009646 TPR repeat; Region: TPR_11; pfam13414 1006007009647 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 1006007009648 TPR motif; other site 1006007009649 binding surface 1006007009650 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1006007009651 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 1006007009652 binding surface 1006007009653 TPR motif; other site 1006007009654 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1006007009655 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 1006007009656 TPR motif; other site 1006007009657 binding surface 1006007009658 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 1006007009659 TPR motif; other site 1006007009660 binding surface 1006007009661 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 1006007009662 binding surface 1006007009663 TPR motif; other site 1006007009664 potential frameshift: common BLAST hit: gi|294498236|ref|YP_003561936.1| major facilitator family transporter 1006007009665 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1006007009666 potential frameshift: common BLAST hit: gi|294498236|ref|YP_003561936.1| major facilitator family transporter 1006007009667 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 1006007009668 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007009669 putative substrate translocation pore; other site 1006007009670 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 1006007009671 DNA-binding site [nucleotide binding]; DNA binding site 1006007009672 RNA-binding motif; other site 1006007009673 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 1006007009674 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 1006007009675 hypothetical protein; Validated; Region: PRK07708 1006007009676 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 1006007009677 RNA/DNA hybrid binding site [nucleotide binding]; other site 1006007009678 active site 1006007009679 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 1006007009680 RNA/DNA hybrid binding site [nucleotide binding]; other site 1006007009681 active site 1006007009682 Divergent PAP2 family; Region: DUF212; pfam02681 1006007009683 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 1006007009684 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 1006007009685 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1006007009686 Dynamin family; Region: Dynamin_N; pfam00350 1006007009687 G1 box; other site 1006007009688 GTP/Mg2+ binding site [chemical binding]; other site 1006007009689 G2 box; other site 1006007009690 Switch I region; other site 1006007009691 G3 box; other site 1006007009692 Switch II region; other site 1006007009693 G4 box; other site 1006007009694 G5 box; other site 1006007009695 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1006007009696 Dynamin family; Region: Dynamin_N; pfam00350 1006007009697 G1 box; other site 1006007009698 GTP/Mg2+ binding site [chemical binding]; other site 1006007009699 G2 box; other site 1006007009700 Switch I region; other site 1006007009701 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1006007009702 G3 box; other site 1006007009703 Switch II region; other site 1006007009704 GTP/Mg2+ binding site [chemical binding]; other site 1006007009705 G4 box; other site 1006007009706 G5 box; other site 1006007009707 Phospholipid methyltransferase; Region: PEMT; cl17370 1006007009708 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 1006007009709 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 1006007009710 malonyl-CoA binding site [chemical binding]; other site 1006007009711 dimer interface [polypeptide binding]; other site 1006007009712 active site 1006007009713 product binding site; other site 1006007009714 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1006007009715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007009716 Coenzyme A binding pocket [chemical binding]; other site 1006007009717 succinic semialdehyde dehydrogenase; Region: PLN02278 1006007009718 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1006007009719 tetramerization interface [polypeptide binding]; other site 1006007009720 NAD(P) binding site [chemical binding]; other site 1006007009721 catalytic residues [active] 1006007009722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007009723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007009724 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007009725 dimerization interface [polypeptide binding]; other site 1006007009726 potential frameshift: common BLAST hit: gi|295703568|ref|YP_003596643.1| xanthine permease 1006007009727 xanthine permease; Region: pbuX; TIGR03173 1006007009728 xanthine permease; Region: pbuX; TIGR03173 1006007009729 potential frameshift: common BLAST hit: gi|294498216|ref|YP_003561916.1| xanthine phosphoribosyltransferase 1006007009730 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1006007009731 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1006007009732 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1006007009733 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1006007009734 active site 1006007009735 Zn binding site [ion binding]; other site 1006007009736 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1006007009737 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1006007009738 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1006007009739 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1006007009740 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1006007009741 Walker A/P-loop; other site 1006007009742 ATP binding site [chemical binding]; other site 1006007009743 Q-loop/lid; other site 1006007009744 ABC transporter signature motif; other site 1006007009745 Walker B; other site 1006007009746 D-loop; other site 1006007009747 H-loop/switch region; other site 1006007009748 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1006007009749 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1006007009750 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1006007009751 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 1006007009752 dimer interface [polypeptide binding]; other site 1006007009753 conserved gate region; other site 1006007009754 putative PBP binding loops; other site 1006007009755 ABC-ATPase subunit interface; other site 1006007009756 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1006007009757 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 1006007009758 dimer interface [polypeptide binding]; other site 1006007009759 conserved gate region; other site 1006007009760 ABC-ATPase subunit interface; other site 1006007009761 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1006007009762 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1006007009763 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 1006007009764 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1006007009765 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 1006007009766 Ca binding site [ion binding]; other site 1006007009767 active site 1006007009768 catalytic site [active] 1006007009769 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1006007009770 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 1006007009771 active site 1006007009772 phosphorylation site [posttranslational modification] 1006007009773 intermolecular recognition site; other site 1006007009774 dimerization interface [polypeptide binding]; other site 1006007009775 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 1006007009776 DNA binding residues [nucleotide binding] 1006007009777 dimerization interface [polypeptide binding]; other site 1006007009778 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1006007009779 Histidine kinase; Region: HisKA_3; pfam07730 1006007009780 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 1006007009781 ATP binding site [chemical binding]; other site 1006007009782 Mg2+ binding site [ion binding]; other site 1006007009783 G-X-G motif; other site 1006007009784 Predicted membrane protein [Function unknown]; Region: COG4758 1006007009785 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1006007009786 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1006007009787 cell division protein GpsB; Provisional; Region: PRK14127 1006007009788 DivIVA domain; Region: DivI1A_domain; TIGR03544 1006007009789 hypothetical protein; Provisional; Region: PRK13660 1006007009790 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 1006007009791 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 1006007009792 RNase_H superfamily; Region: RNase_H_2; pfam13482 1006007009793 active site 1006007009794 substrate binding site [chemical binding]; other site 1006007009795 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 1006007009796 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 1006007009797 ATP binding site [chemical binding]; other site 1006007009798 putative Mg++ binding site [ion binding]; other site 1006007009799 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 1006007009800 nucleotide binding region [chemical binding]; other site 1006007009801 ATP-binding site [chemical binding]; other site 1006007009802 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1006007009803 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1006007009804 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1006007009805 metal binding site [ion binding]; metal-binding site 1006007009806 active site 1006007009807 I-site; other site 1006007009808 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 1006007009809 DNA-binding site [nucleotide binding]; DNA binding site 1006007009810 RNA-binding motif; other site 1006007009811 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 1006007009812 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 1006007009813 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1006007009814 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1006007009815 Na binding site [ion binding]; other site 1006007009816 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1006007009817 cystathionine beta-lyase; Provisional; Region: PRK07671 1006007009818 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 1006007009819 homodimer interface [polypeptide binding]; other site 1006007009820 substrate-cofactor binding pocket; other site 1006007009821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007009822 catalytic residue [active] 1006007009823 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1006007009824 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 1006007009825 homodimer interface [polypeptide binding]; other site 1006007009826 substrate-cofactor binding pocket; other site 1006007009827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007009828 catalytic residue [active] 1006007009829 CotH protein; Region: CotH; pfam08757 1006007009830 YppG-like protein; Region: YppG; pfam14179 1006007009831 YppF-like protein; Region: YppF; pfam14178 1006007009832 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 1006007009833 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 1006007009834 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1006007009835 Transglycosylase; Region: Transgly; pfam00912 1006007009836 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1006007009837 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1006007009838 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1006007009839 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1006007009840 minor groove reading motif; other site 1006007009841 helix-hairpin-helix signature motif; other site 1006007009842 substrate binding pocket [chemical binding]; other site 1006007009843 active site 1006007009844 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1006007009845 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1006007009846 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1006007009847 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1006007009848 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 1006007009849 putative dimer interface [polypeptide binding]; other site 1006007009850 putative anticodon binding site; other site 1006007009851 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 1006007009852 homodimer interface [polypeptide binding]; other site 1006007009853 motif 1; other site 1006007009854 motif 2; other site 1006007009855 active site 1006007009856 motif 3; other site 1006007009857 aspartate aminotransferase; Provisional; Region: PRK05764 1006007009858 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 1006007009859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007009860 homodimer interface [polypeptide binding]; other site 1006007009861 catalytic residue [active] 1006007009862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1006007009863 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1006007009864 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 1006007009865 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1006007009866 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 1006007009867 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1006007009868 active site 1006007009869 catalytic site [active] 1006007009870 substrate binding site [chemical binding]; other site 1006007009871 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1006007009872 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 1006007009873 putative Mg++ binding site [ion binding]; other site 1006007009874 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1006007009875 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1006007009876 tetramerization interface [polypeptide binding]; other site 1006007009877 active site 1006007009878 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1006007009879 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1006007009880 active site 1006007009881 ATP-binding site [chemical binding]; other site 1006007009882 pantoate-binding site; other site 1006007009883 HXXH motif; other site 1006007009884 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 1006007009885 oligomerization interface [polypeptide binding]; other site 1006007009886 active site 1006007009887 metal binding site [ion binding]; metal-binding site 1006007009888 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1006007009889 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1006007009890 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1006007009891 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1006007009892 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1006007009893 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1006007009894 active site 1006007009895 NTP binding site [chemical binding]; other site 1006007009896 metal binding triad [ion binding]; metal-binding site 1006007009897 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1006007009898 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1006007009899 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 1006007009900 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 1006007009901 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 1006007009902 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 1006007009903 active site 1006007009904 dimer interfaces [polypeptide binding]; other site 1006007009905 catalytic residues [active] 1006007009906 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1006007009907 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1006007009908 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1006007009909 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 1006007009910 homodimer interface [polypeptide binding]; other site 1006007009911 metal binding site [ion binding]; metal-binding site 1006007009912 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007009913 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007009914 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007009915 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 1006007009916 Sporulation protein YpjB (SpoYpjB); Region: Spore_YpjB; cl09800 1006007009917 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1006007009918 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1006007009919 FOG: CBS domain [General function prediction only]; Region: COG0517 1006007009920 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 1006007009921 YugN-like family; Region: YugN; pfam08868 1006007009922 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 1006007009923 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 1006007009924 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 1006007009925 Subunit I/III interface [polypeptide binding]; other site 1006007009926 Subunit III/IV interface [polypeptide binding]; other site 1006007009927 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1006007009928 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 1006007009929 D-pathway; other site 1006007009930 Putative ubiquinol binding site [chemical binding]; other site 1006007009931 Low-spin heme (heme b) binding site [chemical binding]; other site 1006007009932 Putative water exit pathway; other site 1006007009933 Binuclear center (heme o3/CuB) [ion binding]; other site 1006007009934 K-pathway; other site 1006007009935 Putative proton exit pathway; other site 1006007009936 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1006007009937 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1006007009938 Cytochrome c; Region: Cytochrom_C; pfam00034 1006007009939 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1006007009940 UbiA prenyltransferase family; Region: UbiA; pfam01040 1006007009941 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1006007009942 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1006007009943 pyruvate carboxylase; Reviewed; Region: PRK12999 1006007009944 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1006007009945 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1006007009946 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1006007009947 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1006007009948 active site 1006007009949 catalytic residues [active] 1006007009950 metal binding site [ion binding]; metal-binding site 1006007009951 homodimer binding site [polypeptide binding]; other site 1006007009952 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 1006007009953 carboxyltransferase (CT) interaction site; other site 1006007009954 biotinylation site [posttranslational modification]; other site 1006007009955 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1006007009956 hypothetical protein; Provisional; Region: PRK13666 1006007009957 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1006007009958 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1006007009959 putative active site [active] 1006007009960 PhoH-like protein; Region: PhoH; pfam02562 1006007009961 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 1006007009962 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 1006007009963 hypothetical protein; Provisional; Region: PRK06733 1006007009964 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; pfam09963 1006007009965 YlaH-like protein; Region: YlaH; pfam14036 1006007009966 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1006007009967 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1006007009968 G1 box; other site 1006007009969 putative GEF interaction site [polypeptide binding]; other site 1006007009970 GTP/Mg2+ binding site [chemical binding]; other site 1006007009971 Switch I region; other site 1006007009972 G2 box; other site 1006007009973 G3 box; other site 1006007009974 Switch II region; other site 1006007009975 G4 box; other site 1006007009976 G5 box; other site 1006007009977 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 1006007009978 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 1006007009979 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1006007009980 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1006007009981 active site 1006007009982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 1006007009983 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 1006007009984 Uncharacterized protein family (UPF0223); Region: UPF0223; pfam05256 1006007009985 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 1006007009986 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1006007009987 homodimer interface [polypeptide binding]; other site 1006007009988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007009989 catalytic residue [active] 1006007009990 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1006007009991 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 1006007009992 BCCT family transporter; Region: BCCT; pfam02028 1006007009993 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1006007009994 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1006007009995 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007009996 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1006007009997 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1006007009998 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 1006007009999 E3 interaction surface; other site 1006007010000 lipoyl attachment site [posttranslational modification]; other site 1006007010001 e3 binding domain; Region: E3_binding; pfam02817 1006007010002 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1006007010003 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1006007010004 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1006007010005 alpha subunit interface [polypeptide binding]; other site 1006007010006 TPP binding site [chemical binding]; other site 1006007010007 heterodimer interface [polypeptide binding]; other site 1006007010008 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1006007010009 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1006007010010 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1006007010011 TPP-binding site [chemical binding]; other site 1006007010012 tetramer interface [polypeptide binding]; other site 1006007010013 heterodimer interface [polypeptide binding]; other site 1006007010014 phosphorylation loop region [posttranslational modification] 1006007010015 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 1006007010016 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 1006007010017 active site 1006007010018 catalytic residues [active] 1006007010019 metal binding site [ion binding]; metal-binding site 1006007010020 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1006007010021 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 1006007010022 motif II; other site 1006007010023 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 1006007010024 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1006007010025 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1006007010026 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1006007010027 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1006007010028 TrkA-N domain; Region: TrkA_N; pfam02254 1006007010029 TrkA-C domain; Region: TrkA_C; pfam02080 1006007010030 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1006007010031 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1006007010032 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1006007010033 Walker A/P-loop; other site 1006007010034 ATP binding site [chemical binding]; other site 1006007010035 Q-loop/lid; other site 1006007010036 ABC transporter signature motif; other site 1006007010037 Walker B; other site 1006007010038 D-loop; other site 1006007010039 H-loop/switch region; other site 1006007010040 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1006007010041 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1006007010042 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1006007010043 Walker A/P-loop; other site 1006007010044 ATP binding site [chemical binding]; other site 1006007010045 Q-loop/lid; other site 1006007010046 ABC transporter signature motif; other site 1006007010047 Walker B; other site 1006007010048 D-loop; other site 1006007010049 H-loop/switch region; other site 1006007010050 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1006007010051 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1006007010052 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1006007010053 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1006007010054 catalytic residues [active] 1006007010055 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1006007010056 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 1006007010057 dimer interface [polypeptide binding]; other site 1006007010058 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1006007010059 catalytic triad [active] 1006007010060 peroxidatic and resolving cysteines [active] 1006007010061 mechanosensitive channel MscS; Provisional; Region: PRK10334 1006007010062 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1006007010063 hypothetical protein; Provisional; Region: PRK03094 1006007010064 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1006007010065 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 1006007010066 metal binding site [ion binding]; metal-binding site 1006007010067 putative dimer interface [polypeptide binding]; other site 1006007010068 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1006007010069 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1006007010070 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 1006007010071 active site 1006007010072 trimer interface [polypeptide binding]; other site 1006007010073 substrate binding site [chemical binding]; other site 1006007010074 CoA binding site [chemical binding]; other site 1006007010075 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007010076 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007010077 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007010078 dimerization interface [polypeptide binding]; other site 1006007010079 FOG: CBS domain [General function prediction only]; Region: COG0517 1006007010080 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 1006007010081 Protein of unknown function (DUF1797); Region: DUF1797; pfam08796 1006007010082 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 1006007010083 catalytic residues [active] 1006007010084 Protein of unknown function (DUF3993); Region: DUF3993; pfam13158 1006007010085 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 1006007010086 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 1006007010087 short chain dehydrogenase; Provisional; Region: PRK07677 1006007010088 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 1006007010089 NAD(P) binding site [chemical binding]; other site 1006007010090 substrate binding site [chemical binding]; other site 1006007010091 homotetramer interface [polypeptide binding]; other site 1006007010092 active site 1006007010093 homodimer interface [polypeptide binding]; other site 1006007010094 phosphodiesterase YaeI; Provisional; Region: PRK11340 1006007010095 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1006007010096 putative active site [active] 1006007010097 putative metal binding site [ion binding]; other site 1006007010098 polyphosphate kinase; Provisional; Region: PRK05443 1006007010099 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1006007010100 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1006007010101 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1006007010102 putative domain interface [polypeptide binding]; other site 1006007010103 putative active site [active] 1006007010104 catalytic site [active] 1006007010105 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1006007010106 putative domain interface [polypeptide binding]; other site 1006007010107 putative active site [active] 1006007010108 catalytic site [active] 1006007010109 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1006007010110 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1006007010111 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007010112 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1006007010113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1006007010114 YkyB-like protein; Region: YkyB; pfam14177 1006007010115 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 1006007010116 putative CheA interaction surface; other site 1006007010117 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1006007010118 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 1006007010119 active site 1006007010120 phosphorylation site [posttranslational modification] 1006007010121 intermolecular recognition site; other site 1006007010122 dimerization interface [polypeptide binding]; other site 1006007010123 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007010124 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007010125 IDEAL domain; Region: IDEAL; pfam08858 1006007010126 aminotransferase A; Validated; Region: PRK07683 1006007010127 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 1006007010128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007010129 homodimer interface [polypeptide binding]; other site 1006007010130 catalytic residue [active] 1006007010131 Nitroreductase-like family 1. 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_1; cd02137 1006007010132 dimer interface [polypeptide binding]; other site 1006007010133 FMN binding site [chemical binding]; other site 1006007010134 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1006007010135 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1006007010136 putative NAD(P) binding site [chemical binding]; other site 1006007010137 putative active site [active] 1006007010138 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007010139 Coenzyme A binding pocket [chemical binding]; other site 1006007010140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007010141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007010142 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1006007010143 putative dimerization interface [polypeptide binding]; other site 1006007010144 LrgA family; Region: LrgA; pfam03788 1006007010145 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1006007010146 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1006007010147 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1006007010148 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1006007010149 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1006007010150 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 1006007010151 dimerization domain swap beta strand [polypeptide binding]; other site 1006007010152 regulatory protein interface [polypeptide binding]; other site 1006007010153 active site 1006007010154 regulatory phosphorylation site [posttranslational modification]; other site 1006007010155 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1006007010156 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1006007010157 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 1006007010158 active site turn [active] 1006007010159 phosphorylation site [posttranslational modification] 1006007010160 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 1006007010161 HPr interaction site; other site 1006007010162 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1006007010163 active site 1006007010164 phosphorylation site [posttranslational modification] 1006007010165 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1006007010166 PRD domain; Region: PRD; pfam00874 1006007010167 PRD domain; Region: PRD; pfam00874 1006007010168 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 1006007010169 homopentamer interface [polypeptide binding]; other site 1006007010170 active site 1006007010171 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1006007010172 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1006007010173 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 1006007010174 dimerization interface [polypeptide binding]; other site 1006007010175 active site 1006007010176 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1006007010177 Lumazine binding domain; Region: Lum_binding; pfam00677 1006007010178 Lumazine binding domain; Region: Lum_binding; pfam00677 1006007010179 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1006007010180 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 1006007010181 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1006007010182 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 1006007010183 FAD binding site [chemical binding]; other site 1006007010184 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1006007010185 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 1006007010186 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1006007010187 substrate binding pocket [chemical binding]; other site 1006007010188 dimer interface [polypeptide binding]; other site 1006007010189 inhibitor binding site; inhibition site 1006007010190 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 1006007010191 B12 binding site [chemical binding]; other site 1006007010192 cobalt ligand [ion binding]; other site 1006007010193 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1006007010194 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 1006007010195 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1006007010196 active site 1006007010197 motif I; other site 1006007010198 motif II; other site 1006007010199 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 1006007010200 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1006007010201 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1006007010202 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 1006007010203 potential frameshift: common BLAST hit: gi|295703401|ref|YP_003596476.1| spore cortex-lytic enzyme 1006007010204 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1006007010205 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007010206 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1006007010207 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1006007010208 active site 1006007010209 nucleophile elbow; other site 1006007010210 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; pfam09953 1006007010211 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1006007010212 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1006007010213 NAD binding site [chemical binding]; other site 1006007010214 active site 1006007010215 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1006007010216 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 1006007010217 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1006007010218 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1006007010219 active site 1006007010220 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 1006007010221 Ligand Binding Site [chemical binding]; other site 1006007010222 Spore germination protein; Region: Spore_permease; cl17796 1006007010223 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1006007010224 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1006007010225 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1006007010226 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 1006007010227 classical (c) SDRs; Region: SDR_c; cd05233 1006007010228 NAD(P) binding site [chemical binding]; other site 1006007010229 active site 1006007010230 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1006007010231 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1006007010232 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1006007010233 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 1006007010234 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1006007010235 Walker A motif; other site 1006007010236 ATP binding site [chemical binding]; other site 1006007010237 Walker B motif; other site 1006007010238 arginine finger; other site 1006007010239 UvrB/uvrC motif; Region: UVR; pfam02151 1006007010240 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 1006007010241 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1006007010242 Walker A motif; other site 1006007010243 ATP binding site [chemical binding]; other site 1006007010244 Walker B motif; other site 1006007010245 arginine finger; other site 1006007010246 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1006007010247 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 1006007010248 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1006007010249 putative active site [active] 1006007010250 heme pocket [chemical binding]; other site 1006007010251 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 1006007010252 dimer interface [polypeptide binding]; other site 1006007010253 phosphorylation site [posttranslational modification] 1006007010254 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 1006007010255 ATP binding site [chemical binding]; other site 1006007010256 Mg2+ binding site [ion binding]; other site 1006007010257 G-X-G motif; other site 1006007010258 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 1006007010259 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 1006007010260 active site 1006007010261 Zn binding site [ion binding]; other site 1006007010262 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007010263 MarR family; Region: MarR; pfam01047 1006007010264 MarR family; Region: MarR_2; cl17246 1006007010265 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1006007010266 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 1006007010267 nucleotide binding site/active site [active] 1006007010268 HIT family signature motif; other site 1006007010269 catalytic residue [active] 1006007010270 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1006007010271 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1006007010272 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1006007010273 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 1006007010274 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1006007010275 putative ligand binding site [chemical binding]; other site 1006007010276 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1006007010277 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 1006007010278 active site 1006007010279 motif I; other site 1006007010280 motif II; other site 1006007010281 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 1006007010282 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 1006007010283 dimer interface [polypeptide binding]; other site 1006007010284 active site 1006007010285 catalytic residue [active] 1006007010286 metal binding site [ion binding]; metal-binding site 1006007010287 transaminase; Reviewed; Region: PRK08068 1006007010288 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 1006007010289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007010290 homodimer interface [polypeptide binding]; other site 1006007010291 catalytic residue [active] 1006007010292 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1006007010293 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 1006007010294 putative active site [active] 1006007010295 catalytic triad [active] 1006007010296 putative dimer interface [polypeptide binding]; other site 1006007010297 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 1006007010298 Phosphotransferase enzyme family; Region: APH; pfam01636 1006007010299 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1006007010300 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1006007010301 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1006007010302 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 1006007010303 DNA binding site [nucleotide binding] 1006007010304 active site 1006007010305 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1006007010306 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 1006007010307 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1006007010308 putative active site [active] 1006007010309 heme pocket [chemical binding]; other site 1006007010310 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 1006007010311 putative active site [active] 1006007010312 heme pocket [chemical binding]; other site 1006007010313 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1006007010314 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 1006007010315 putative active site [active] 1006007010316 heme pocket [chemical binding]; other site 1006007010317 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 1006007010318 dimer interface [polypeptide binding]; other site 1006007010319 phosphorylation site [posttranslational modification] 1006007010320 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 1006007010321 ATP binding site [chemical binding]; other site 1006007010322 Mg2+ binding site [ion binding]; other site 1006007010323 G-X-G motif; other site 1006007010324 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1006007010325 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1006007010326 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1006007010327 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1006007010328 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 1006007010329 Cysteine-rich domain; Region: CCG; pfam02754 1006007010330 Cysteine-rich domain; Region: CCG; pfam02754 1006007010331 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1006007010332 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 1006007010333 homodimer interface [polypeptide binding]; other site 1006007010334 NAD binding pocket [chemical binding]; other site 1006007010335 ATP binding pocket [chemical binding]; other site 1006007010336 Mg binding site [ion binding]; other site 1006007010337 active-site loop [active] 1006007010338 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1006007010339 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 1006007010340 active site 1006007010341 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1006007010342 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007010343 DNA-binding site [nucleotide binding]; DNA binding site 1006007010344 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1006007010345 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1006007010346 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1006007010347 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 1006007010348 FeS/SAM binding site; other site 1006007010349 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 1006007010350 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 1006007010351 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1006007010352 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1006007010353 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 1006007010354 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1006007010355 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1006007010356 acetoacetyl-CoA reductase; Provisional; Region: PRK12935 1006007010357 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1006007010358 NAD(P) binding site [chemical binding]; other site 1006007010359 homotetramer interface [polypeptide binding]; other site 1006007010360 homodimer interface [polypeptide binding]; other site 1006007010361 active site 1006007010362 polyhydroxyalkanoic acid synthase, PhaR subunit; Region: phaR_Bmeg; TIGR02132 1006007010363 poly-beta-hydroxybutyrate-responsive repressor; Region: repress_PhaQ; TIGR02719 1006007010364 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007010365 polyhydroxyalkanoic acid inclusion protein PhaP; Region: phaP_Bmeg; TIGR02131 1006007010366 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1006007010367 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 1006007010368 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007010369 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 1006007010370 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1006007010371 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1006007010372 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1006007010373 PAS domain S-box; Region: sensory_box; TIGR00229 1006007010374 PAS domain S-box; Region: sensory_box; TIGR00229 1006007010375 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1006007010376 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 1006007010377 putative active site [active] 1006007010378 heme pocket [chemical binding]; other site 1006007010379 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 1006007010380 dimer interface [polypeptide binding]; other site 1006007010381 phosphorylation site [posttranslational modification] 1006007010382 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 1006007010383 ATP binding site [chemical binding]; other site 1006007010384 Mg2+ binding site [ion binding]; other site 1006007010385 G-X-G motif; other site 1006007010386 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1006007010387 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 1006007010388 active site 1006007010389 phosphorylation site [posttranslational modification] 1006007010390 intermolecular recognition site; other site 1006007010391 dimerization interface [polypeptide binding]; other site 1006007010392 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1006007010393 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 1006007010394 active site 1006007010395 phosphorylation site [posttranslational modification] 1006007010396 intermolecular recognition site; other site 1006007010397 dimerization interface [polypeptide binding]; other site 1006007010398 LytTr DNA-binding domain; Region: LytTR; smart00850 1006007010399 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 1006007010400 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1006007010401 dimer interface [polypeptide binding]; other site 1006007010402 active site 1006007010403 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 1006007010404 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 1006007010405 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 1006007010406 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 1006007010407 Spore germination protein; Region: Spore_permease; cl17796 1006007010408 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1006007010409 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1006007010410 SelR domain; Region: SelR; pfam01641 1006007010411 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007010412 MarR family; Region: MarR; pfam01047 1006007010413 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 1006007010414 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1006007010415 DNA binding residues [nucleotide binding] 1006007010416 Phosphotransferase enzyme family; Region: APH; pfam01636 1006007010417 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; cd05120 1006007010418 active site 1006007010419 substrate binding site [chemical binding]; other site 1006007010420 ATP binding site [chemical binding]; other site 1006007010421 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1006007010422 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1006007010423 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1006007010424 ATP-binding cassette domain of the Na+ transporter; Region: ABC_NatA_sodium_exporter; cd03266 1006007010425 Walker A/P-loop; other site 1006007010426 ATP binding site [chemical binding]; other site 1006007010427 Q-loop/lid; other site 1006007010428 ABC transporter signature motif; other site 1006007010429 Walker B; other site 1006007010430 D-loop; other site 1006007010431 H-loop/switch region; other site 1006007010432 potential frameshift: common BLAST hit: gi|295703331|ref|YP_003596406.1| two-component response regulator NatR 1006007010433 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1006007010434 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1006007010435 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 1006007010436 intermolecular recognition site; other site 1006007010437 active site 1006007010438 dimerization interface [polypeptide binding]; other site 1006007010439 LytTr DNA-binding domain; Region: LytTR; smart00850 1006007010440 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 1006007010441 ATP binding site [chemical binding]; other site 1006007010442 Mg2+ binding site [ion binding]; other site 1006007010443 G-X-G motif; other site 1006007010444 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1006007010445 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 1006007010446 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007010447 putative substrate translocation pore; other site 1006007010448 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007010449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007010450 Coenzyme A binding pocket [chemical binding]; other site 1006007010451 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1006007010452 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 1006007010453 putative metal binding site [ion binding]; other site 1006007010454 putative dimer interface [polypeptide binding]; other site 1006007010455 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1006007010456 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 1006007010457 metal binding site [ion binding]; metal-binding site 1006007010458 dimer interface [polypeptide binding]; other site 1006007010459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007010460 Coenzyme A binding pocket [chemical binding]; other site 1006007010461 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 1006007010462 dimerization interface [polypeptide binding]; other site 1006007010463 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1006007010464 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1006007010465 dimer interface [polypeptide binding]; other site 1006007010466 putative CheW interface [polypeptide binding]; other site 1006007010467 Protein of unknown function DUF45; Region: DUF45; cl00636 1006007010468 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 1006007010469 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1006007010470 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 1006007010471 Catalytic site [active] 1006007010472 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 1006007010473 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 1006007010474 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1006007010475 active site 1006007010476 catalytic residues [active] 1006007010477 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 1006007010478 putative active site pocket [active] 1006007010479 dimerization interface [polypeptide binding]; other site 1006007010480 putative catalytic residue [active] 1006007010481 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 1006007010482 putative active site pocket [active] 1006007010483 dimerization interface [polypeptide binding]; other site 1006007010484 putative catalytic residue [active] 1006007010485 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 1006007010486 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007010487 putative metal binding site [ion binding]; other site 1006007010488 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1006007010489 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007010490 DNA binding residues [nucleotide binding] 1006007010491 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1006007010492 Domain of unknown function DUF21; Region: DUF21; pfam01595 1006007010493 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 1006007010494 Transporter associated domain; Region: CorC_HlyC; smart01091 1006007010495 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1006007010496 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1006007010497 Walker A/P-loop; other site 1006007010498 ATP binding site [chemical binding]; other site 1006007010499 Q-loop/lid; other site 1006007010500 ABC transporter signature motif; other site 1006007010501 Walker B; other site 1006007010502 D-loop; other site 1006007010503 H-loop/switch region; other site 1006007010504 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1006007010505 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1006007010506 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1006007010507 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1006007010508 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007010509 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1006007010510 active site 1006007010511 Protein of unknown function (DUF554); Region: DUF554; pfam04474 1006007010512 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 1006007010513 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1006007010514 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 1006007010515 active site turn [active] 1006007010516 phosphorylation site [posttranslational modification] 1006007010517 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1006007010518 HPr interaction site; other site 1006007010519 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1006007010520 active site 1006007010521 phosphorylation site [posttranslational modification] 1006007010522 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1006007010523 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 1006007010524 active site 1006007010525 dimer interface [polypeptide binding]; other site 1006007010526 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1006007010527 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 1006007010528 active site 1006007010529 trimer interface [polypeptide binding]; other site 1006007010530 allosteric site; other site 1006007010531 active site lid [active] 1006007010532 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1006007010533 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1006007010534 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007010535 DNA-binding site [nucleotide binding]; DNA binding site 1006007010536 UTRA domain; Region: UTRA; pfam07702 1006007010537 hypothetical protein; Provisional; Region: PRK02947 1006007010538 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 1006007010539 putative active site [active] 1006007010540 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007010541 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007010542 Coenzyme A binding pocket [chemical binding]; other site 1006007010543 SUKH-4 immunity protein; Region: SUKH-4; pfam14435 1006007010544 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 1006007010545 active site 1006007010546 catalytic triad [active] 1006007010547 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1006007010548 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 1006007010549 oligomer interface [polypeptide binding]; other site 1006007010550 metal binding site [ion binding]; metal-binding site 1006007010551 metal binding site [ion binding]; metal-binding site 1006007010552 putative Cl binding site [ion binding]; other site 1006007010553 aspartate ring; other site 1006007010554 basic sphincter; other site 1006007010555 hydrophobic gate; other site 1006007010556 periplasmic entrance; other site 1006007010557 PilZ domain; Region: PilZ; pfam07238 1006007010558 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1006007010559 Cupin; Region: Cupin_1; smart00835 1006007010560 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1006007010561 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1006007010562 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 1006007010563 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 1006007010564 GIY-YIG motif/motif A; other site 1006007010565 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1006007010566 active site 1006007010567 metal binding site [ion binding]; metal-binding site 1006007010568 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007010569 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1006007010570 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1006007010571 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 1006007010572 putative substrate binding site [chemical binding]; other site 1006007010573 putative ATP binding site [chemical binding]; other site 1006007010574 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1006007010575 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1006007010576 active site 1006007010577 SAM binding site [chemical binding]; other site 1006007010578 homodimer interface [polypeptide binding]; other site 1006007010579 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 1006007010580 [2Fe-2S] cluster binding site [ion binding]; other site 1006007010581 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1006007010582 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007010583 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1006007010584 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1006007010585 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1006007010586 Anti-repressor SinI; Region: SinI; pfam08671 1006007010587 Anti-repressor SinI; Region: SinI; pfam08671 1006007010588 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 1006007010589 active site 1006007010590 oxyanion hole [active] 1006007010591 catalytic triad [active] 1006007010592 RNA polymerase factor sigma-70; Validated; Region: PRK06759 1006007010593 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007010594 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 1006007010595 DNA binding residues [nucleotide binding] 1006007010596 ComK protein; Region: ComK; cl11560 1006007010597 GntP family permease; Region: GntP_permease; pfam02447 1006007010598 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1006007010599 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 1006007010600 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 1006007010601 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1006007010602 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007010603 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1006007010604 DNA-binding site [nucleotide binding]; DNA binding site 1006007010605 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1006007010606 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1006007010607 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 1006007010608 active site 1006007010609 FMN binding site [chemical binding]; other site 1006007010610 substrate binding site [chemical binding]; other site 1006007010611 3Fe-4S cluster binding site [ion binding]; other site 1006007010612 pyruvate oxidase; Provisional; Region: PRK08611 1006007010613 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1006007010614 PYR/PP interface [polypeptide binding]; other site 1006007010615 dimer interface [polypeptide binding]; other site 1006007010616 tetramer interface [polypeptide binding]; other site 1006007010617 TPP binding site [chemical binding]; other site 1006007010618 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1006007010619 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 1006007010620 TPP-binding site [chemical binding]; other site 1006007010621 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1006007010622 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1006007010623 membrane-bound transcriptional regulator LytR; Provisional; Region: PRK09379 1006007010624 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1006007010625 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1006007010626 Magnesium ion binding site [ion binding]; other site 1006007010627 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1006007010628 Chain length determinant protein; Region: Wzz; cl15801 1006007010629 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1006007010630 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1006007010631 active site 1006007010632 substrate binding site [chemical binding]; other site 1006007010633 metal binding site [ion binding]; metal-binding site 1006007010634 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1006007010635 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1006007010636 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1006007010637 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1006007010638 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1006007010639 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1006007010640 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 1006007010641 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1006007010642 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1006007010643 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1006007010644 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 1006007010645 active site 1006007010646 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1006007010647 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1006007010648 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1006007010649 putative ADP-binding pocket [chemical binding]; other site 1006007010650 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1006007010651 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1006007010652 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1006007010653 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1006007010654 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1006007010655 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1006007010656 HTH-like domain; Region: HTH_21; pfam13276 1006007010657 Integrase core domain; Region: rve; pfam00665 1006007010658 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1006007010659 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1006007010660 O-Antigen ligase; Region: Wzy_C; pfam04932 1006007010661 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 1006007010662 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007010663 salt bridge; other site 1006007010664 non-specific DNA binding site [nucleotide binding]; other site 1006007010665 sequence-specific DNA binding site [nucleotide binding]; other site 1006007010666 Anti-repressor SinI; Region: SinI; pfam08671 1006007010667 Anti-repressor SinI; Region: SinI; pfam08671 1006007010668 VanZ like family; Region: VanZ; cl01971 1006007010669 histidinol-phosphatase; Provisional; Region: PRK07328 1006007010670 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1006007010671 active site 1006007010672 HPP family; Region: HPP; pfam04982 1006007010673 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1006007010674 Predicted membrane protein [Function unknown]; Region: COG3817 1006007010675 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1006007010676 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 1006007010677 putative substrate binding pocket [chemical binding]; other site 1006007010678 AC domain interface; other site 1006007010679 catalytic triad [active] 1006007010680 AB domain interface; other site 1006007010681 interchain disulfide; other site 1006007010682 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1006007010683 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1006007010684 flagellin; Provisional; Region: PRK12804 1006007010685 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007010686 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1006007010687 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1006007010688 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1006007010689 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1006007010690 putative active site [active] 1006007010691 putative metal binding site [ion binding]; other site 1006007010692 poly-gamma-glutamate biosynthesis protein PgsC/CapC; Region: poly_gGlu_PgsC; TIGR04011 1006007010693 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 1006007010694 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1006007010695 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1006007010696 DXD motif; other site 1006007010697 potential frameshift: common BLAST hit: gi|294497855|ref|YP_003561555.1| PAS/PAC sensor-containing diguanylate cyclase/phosphodiesterase 1006007010698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1006007010699 active site 1006007010700 metal binding site [ion binding]; metal-binding site 1006007010701 I-site; other site 1006007010702 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 1006007010703 PAS domain; Region: PAS; smart00091 1006007010704 PAS domain; Region: PAS_9; pfam13426 1006007010705 putative active site [active] 1006007010706 heme pocket [chemical binding]; other site 1006007010707 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 1006007010708 PAS fold; Region: PAS_3; pfam08447 1006007010709 putative active site [active] 1006007010710 heme pocket [chemical binding]; other site 1006007010711 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 1006007010712 PAS fold; Region: PAS_3; pfam08447 1006007010713 putative active site [active] 1006007010714 heme pocket [chemical binding]; other site 1006007010715 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1006007010716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1006007010717 metal binding site [ion binding]; metal-binding site 1006007010718 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1006007010719 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1006007010720 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007010721 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1006007010722 GTP cyclohydrolase I; Provisional; Region: PLN03044 1006007010723 active site 1006007010724 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 1006007010725 dimerization interface [polypeptide binding]; other site 1006007010726 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1006007010727 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1006007010728 metal binding site [ion binding]; metal-binding site 1006007010729 active site 1006007010730 I-site; other site 1006007010731 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 1006007010732 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007010733 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 1006007010734 non-specific DNA binding site [nucleotide binding]; other site 1006007010735 salt bridge; other site 1006007010736 sequence-specific DNA binding site [nucleotide binding]; other site 1006007010737 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1006007010738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007010739 Walker A/P-loop; other site 1006007010740 ATP binding site [chemical binding]; other site 1006007010741 Q-loop/lid; other site 1006007010742 ABC transporter signature motif; other site 1006007010743 Walker B; other site 1006007010744 D-loop; other site 1006007010745 H-loop/switch region; other site 1006007010746 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 1006007010747 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1006007010748 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1006007010749 active site 1006007010750 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 1006007010751 active site 1006007010752 dimer interface [polypeptide binding]; other site 1006007010753 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 1006007010754 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 1006007010755 Ligand Binding Site [chemical binding]; other site 1006007010756 Molecular Tunnel; other site 1006007010757 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007010758 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007010759 Predicted integral membrane protein [Function unknown]; Region: COG5658 1006007010760 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1006007010761 SdpI/YhfL protein family; Region: SdpI; pfam13630 1006007010762 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 1006007010763 dimerization interface [polypeptide binding]; other site 1006007010764 putative DNA binding site [nucleotide binding]; other site 1006007010765 putative Zn2+ binding site [ion binding]; other site 1006007010766 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1006007010767 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1006007010768 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1006007010769 Probable transposase; Region: OrfB_IS605; pfam01385 1006007010770 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1006007010771 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 1006007010772 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007010773 putative substrate translocation pore; other site 1006007010774 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 1006007010775 Na binding site [ion binding]; other site 1006007010776 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 1006007010777 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 1006007010778 inhibitor-cofactor binding pocket; inhibition site 1006007010779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007010780 catalytic residue [active] 1006007010781 PAS domain; Region: PAS_9; pfam13426 1006007010782 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1006007010783 putative active site [active] 1006007010784 heme pocket [chemical binding]; other site 1006007010785 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 1006007010786 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1006007010787 Walker A motif; other site 1006007010788 ATP binding site [chemical binding]; other site 1006007010789 Walker B motif; other site 1006007010790 arginine finger; other site 1006007010791 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; cl17257 1006007010792 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1006007010793 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1006007010794 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 1006007010795 putative active site [active] 1006007010796 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007010797 Coenzyme A binding pocket [chemical binding]; other site 1006007010798 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 1006007010799 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 1006007010800 active site 1006007010801 octamer interface [polypeptide binding]; other site 1006007010802 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1006007010803 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1006007010804 transmembrane helices; other site 1006007010805 IDEAL domain; Region: IDEAL; cl07452 1006007010806 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 1006007010807 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1006007010808 active site 1006007010809 catalytic tetrad [active] 1006007010810 Stage II sporulation protein; Region: SpoIID; pfam08486 1006007010811 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 1006007010812 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1006007010813 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 1006007010814 active site 1006007010815 metal binding site [ion binding]; metal-binding site 1006007010816 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007010817 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1006007010818 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1006007010819 potential frameshift: common BLAST hit: gi|295703197|ref|YP_003596272.1| two-component response regulator 1006007010820 YcbB domain; Region: YcbB; pfam08664 1006007010821 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 1006007010822 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007010823 active site 1006007010824 phosphorylation site [posttranslational modification] 1006007010825 intermolecular recognition site; other site 1006007010826 dimerization interface [polypeptide binding]; other site 1006007010827 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007010828 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 1006007010829 ATP binding site [chemical binding]; other site 1006007010830 Mg2+ binding site [ion binding]; other site 1006007010831 G-X-G motif; other site 1006007010832 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1006007010833 Na binding site [ion binding]; other site 1006007010834 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 1006007010835 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1006007010836 Sodium Bile acid symporter family; Region: SBF; pfam01758 1006007010837 glucose-1-dehydrogenase; Provisional; Region: PRK08936 1006007010838 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 1006007010839 NAD binding site [chemical binding]; other site 1006007010840 homodimer interface [polypeptide binding]; other site 1006007010841 active site 1006007010842 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1006007010843 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 1006007010844 Predicted transcriptional regulators [Transcription]; Region: COG1733 1006007010845 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1006007010846 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1006007010847 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 1006007010848 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1006007010849 putative active site [active] 1006007010850 heme pocket [chemical binding]; other site 1006007010851 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 1006007010852 putative active site [active] 1006007010853 heme pocket [chemical binding]; other site 1006007010854 PAS domain; Region: PAS_9; pfam13426 1006007010855 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 1006007010856 putative active site [active] 1006007010857 heme pocket [chemical binding]; other site 1006007010858 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1006007010859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1006007010860 metal binding site [ion binding]; metal-binding site 1006007010861 active site 1006007010862 I-site; other site 1006007010863 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 1006007010864 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 1006007010865 Predicted membrane protein [Function unknown]; Region: COG3212 1006007010866 Domain of unknown function (DUF3973); Region: DUF3973; pfam13119 1006007010867 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1006007010868 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1006007010869 NAD binding site [chemical binding]; other site 1006007010870 homodimer interface [polypeptide binding]; other site 1006007010871 active site 1006007010872 substrate binding site [chemical binding]; other site 1006007010873 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 1006007010874 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1006007010875 Amidase; Region: Amidase; cl11426 1006007010876 indole-3-acetamide amidohydrolase; Region: PLN02722 1006007010877 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 1006007010878 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 1006007010879 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1006007010880 active site 1006007010881 catalytic tetrad [active] 1006007010882 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 1006007010883 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007010884 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007010885 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007010886 dimerization interface [polypeptide binding]; other site 1006007010887 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1006007010888 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 1006007010889 S-adenosylmethionine binding site [chemical binding]; other site 1006007010890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1006007010891 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1006007010892 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1006007010893 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007010894 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1006007010895 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 1006007010896 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1006007010897 active site 1006007010898 dimer interface [polypeptide binding]; other site 1006007010899 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1006007010900 active site 1006007010901 P-loop; other site 1006007010902 phosphorylation site [posttranslational modification] 1006007010903 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1006007010904 HTH domain; Region: HTH_11; pfam08279 1006007010905 PRD domain; Region: PRD; pfam00874 1006007010906 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 1006007010907 active site 1006007010908 P-loop; other site 1006007010909 phosphorylation site [posttranslational modification] 1006007010910 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 1006007010911 active site 1006007010912 phosphorylation site [posttranslational modification] 1006007010913 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1006007010914 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 1006007010915 putative active site [active] 1006007010916 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1006007010917 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1006007010918 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1006007010919 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 1006007010920 methionine cluster; other site 1006007010921 active site 1006007010922 phosphorylation site [posttranslational modification] 1006007010923 metal binding site [ion binding]; metal-binding site 1006007010924 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1006007010925 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1006007010926 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1006007010927 NAD binding site [chemical binding]; other site 1006007010928 sugar binding site [chemical binding]; other site 1006007010929 divalent metal binding site [ion binding]; other site 1006007010930 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1006007010931 dimer interface [polypeptide binding]; other site 1006007010932 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1006007010933 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1006007010934 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 1006007010935 active site 1006007010936 P-loop; other site 1006007010937 phosphorylation site [posttranslational modification] 1006007010938 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1006007010939 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1006007010940 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 1006007010941 putative active site [active] 1006007010942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1006007010943 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1006007010944 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, 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_25; cd04684 1006007010945 nudix motif; other site 1006007010946 CsbD-like; Region: CsbD; pfam05532 1006007010947 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1006007010948 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 1006007010949 active site 1006007010950 motif I; other site 1006007010951 motif II; other site 1006007010952 Staygreen protein; Region: Staygreen; pfam12638 1006007010953 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1006007010954 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1006007010955 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1006007010956 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1006007010957 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1006007010958 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1006007010959 putative active site [active] 1006007010960 putative metal binding site [ion binding]; other site 1006007010961 Capsule biosynthesis CapC; Region: Caps_synth_CapC; pfam14102 1006007010962 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 1006007010963 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1006007010964 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007010965 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007010966 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1006007010967 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1006007010968 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 1006007010969 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1006007010970 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1006007010971 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1006007010972 metal binding site [ion binding]; metal-binding site 1006007010973 active site 1006007010974 I-site; other site 1006007010975 hypothetical protein; Provisional; Region: PRK14082 1006007010976 YvrJ protein family; Region: YvrJ; pfam12841 1006007010977 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1006007010978 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 1006007010979 DNA binding residues [nucleotide binding] 1006007010980 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 1006007010981 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1006007010982 catalytic residues [active] 1006007010983 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1006007010984 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 1006007010985 dimer interface [polypeptide binding]; other site 1006007010986 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1006007010987 catalytic triad [active] 1006007010988 peroxidatic and resolving cysteines [active] 1006007010989 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1006007010990 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1006007010991 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1006007010992 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1006007010993 NAD binding site [chemical binding]; other site 1006007010994 substrate binding site [chemical binding]; other site 1006007010995 putative active site [active] 1006007010996 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 1006007010997 DNA-binding site [nucleotide binding]; DNA binding site 1006007010998 RNA-binding motif; other site 1006007010999 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 1006007011000 cytosine deaminase; Provisional; Region: PRK05985 1006007011001 active site 1006007011002 amino acid transporter; Region: 2A0306; TIGR00909 1006007011003 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 1006007011004 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1006007011005 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1006007011006 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 1006007011007 urea carboxylase; Region: urea_carbox; TIGR02712 1006007011008 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1006007011009 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1006007011010 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1006007011011 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1006007011012 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 1006007011013 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 1006007011014 carboxyltransferase (CT) interaction site; other site 1006007011015 biotinylation site [posttranslational modification]; other site 1006007011016 allophanate hydrolase; Provisional; Region: PRK08186 1006007011017 Amidase; Region: Amidase; cl11426 1006007011018 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1006007011019 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 1006007011020 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1006007011021 NAD(P) binding site [chemical binding]; other site 1006007011022 catalytic residues [active] 1006007011023 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1006007011024 active site 1006007011025 catalytic residues [active] 1006007011026 metal binding site [ion binding]; metal-binding site 1006007011027 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1006007011028 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1006007011029 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 1006007011030 D-galactonate transporter; Region: 2A0114; TIGR00893 1006007011031 putative substrate translocation pore; other site 1006007011032 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1006007011033 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1006007011034 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1006007011035 shikimate binding site; other site 1006007011036 NAD(P) binding site [chemical binding]; other site 1006007011037 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1006007011038 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR5; cd08271 1006007011039 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1006007011040 putative NAD(P) binding site [chemical binding]; other site 1006007011041 substrate binding site [chemical binding]; other site 1006007011042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007011043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007011044 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007011045 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1006007011046 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1006007011047 putative FMN binding site [chemical binding]; other site 1006007011048 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 1006007011049 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1006007011050 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1006007011051 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1006007011052 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1006007011053 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1006007011054 putative active site [active] 1006007011055 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1006007011056 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1006007011057 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1006007011058 UTRA domain; Region: UTRA; pfam07702 1006007011059 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1006007011060 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 1006007011061 Ca binding site [ion binding]; other site 1006007011062 active site 1006007011063 catalytic site [active] 1006007011064 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 1006007011065 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 1006007011066 active site turn [active] 1006007011067 phosphorylation site [posttranslational modification] 1006007011068 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1006007011069 Protein of unknown function (DUF3970); Region: DUF3970; pfam13113 1006007011070 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1006007011071 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1006007011072 active site 1006007011073 catalytic residue [active] 1006007011074 dimer interface [polypeptide binding]; other site 1006007011075 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1006007011076 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1006007011077 PYR/PP interface [polypeptide binding]; other site 1006007011078 dimer interface [polypeptide binding]; other site 1006007011079 TPP binding site [chemical binding]; other site 1006007011080 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1006007011081 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1006007011082 TPP-binding site [chemical binding]; other site 1006007011083 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1006007011084 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 1006007011085 NAD(P) binding site [chemical binding]; other site 1006007011086 catalytic residues [active] 1006007011087 shikimate kinase; Reviewed; Region: aroK; PRK00131 1006007011088 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 1006007011089 ADP binding site [chemical binding]; other site 1006007011090 magnesium binding site [ion binding]; other site 1006007011091 putative shikimate binding site; other site 1006007011092 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 1006007011093 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1006007011094 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1006007011095 putative dimerization interface [polypeptide binding]; other site 1006007011096 putative ligand binding site [chemical binding]; other site 1006007011097 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1006007011098 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 1006007011099 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1006007011100 active site 1006007011101 putative substrate binding pocket [chemical binding]; other site 1006007011102 YKOF-related Family; Region: Ykof; pfam07615 1006007011103 YKOF-related Family; Region: Ykof; pfam07615 1006007011104 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 1006007011105 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 1006007011106 inhibitor-cofactor binding pocket; inhibition site 1006007011107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007011108 catalytic residue [active] 1006007011109 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 1006007011110 catalytic core [active] 1006007011111 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1006007011112 PGAP1-like protein; Region: PGAP1; pfam07819 1006007011113 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 1006007011114 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 1006007011115 dimerization interface [polypeptide binding]; other site 1006007011116 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1006007011117 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1006007011118 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1006007011119 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 1006007011120 dimer interface [polypeptide binding]; other site 1006007011121 phosphorylation site [posttranslational modification] 1006007011122 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 1006007011123 ATP binding site [chemical binding]; other site 1006007011124 Mg2+ binding site [ion binding]; other site 1006007011125 G-X-G motif; other site 1006007011126 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007011127 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 1006007011128 active site 1006007011129 phosphorylation site [posttranslational modification] 1006007011130 intermolecular recognition site; other site 1006007011131 dimerization interface [polypeptide binding]; other site 1006007011132 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007011133 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 1006007011134 active site 1006007011135 phosphorylation site [posttranslational modification] 1006007011136 intermolecular recognition site; other site 1006007011137 dimerization interface [polypeptide binding]; other site 1006007011138 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1006007011139 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1006007011140 DXD motif; other site 1006007011141 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 1006007011142 HEAT repeats; Region: HEAT_2; pfam13646 1006007011143 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007011144 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 1006007011145 active site 1006007011146 phosphorylation site [posttranslational modification] 1006007011147 intermolecular recognition site; other site 1006007011148 dimerization interface [polypeptide binding]; other site 1006007011149 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1006007011150 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1006007011151 metal binding site [ion binding]; metal-binding site 1006007011152 active site 1006007011153 I-site; other site 1006007011154 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 1006007011155 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007011156 active site 1006007011157 phosphorylation site [posttranslational modification] 1006007011158 intermolecular recognition site; other site 1006007011159 dimerization interface [polypeptide binding]; other site 1006007011160 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007011161 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1006007011162 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1006007011163 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 1006007011164 dimer interface [polypeptide binding]; other site 1006007011165 conserved gate region; other site 1006007011166 putative PBP binding loops; other site 1006007011167 ABC-ATPase subunit interface; other site 1006007011168 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 1006007011169 dimer interface [polypeptide binding]; other site 1006007011170 putative PBP binding loops; other site 1006007011171 ABC-ATPase subunit interface; other site 1006007011172 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1006007011173 PBP superfamily domain; Region: PBP_like_2; cl17296 1006007011174 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1006007011175 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1006007011176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1006007011177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1006007011178 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1006007011179 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1006007011180 ligand binding site [chemical binding]; other site 1006007011181 dimerization interface [polypeptide binding]; other site 1006007011182 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1006007011183 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 1006007011184 TM-ABC transporter signature motif; other site 1006007011185 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1006007011186 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1006007011187 Walker A/P-loop; other site 1006007011188 ATP binding site [chemical binding]; other site 1006007011189 Q-loop/lid; other site 1006007011190 ABC transporter signature motif; other site 1006007011191 Walker B; other site 1006007011192 D-loop; other site 1006007011193 H-loop/switch region; other site 1006007011194 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1006007011195 D-ribose pyranase; Provisional; Region: PRK11797 1006007011196 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1006007011197 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 1006007011198 substrate binding site [chemical binding]; other site 1006007011199 dimer interface [polypeptide binding]; other site 1006007011200 ATP binding site [chemical binding]; other site 1006007011201 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007011202 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007011203 DNA binding site [nucleotide binding] 1006007011204 domain linker motif; other site 1006007011205 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1006007011206 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007011207 MarR family; Region: MarR; pfam01047 1006007011208 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1006007011209 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1006007011210 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1006007011211 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 1006007011212 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 1006007011213 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 1006007011214 carboxyltransferase (CT) interaction site; other site 1006007011215 biotinylation site [posttranslational modification]; other site 1006007011216 HlyD family secretion protein; Region: HlyD_3; pfam13437 1006007011217 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1006007011218 MarR family; Region: MarR_2; pfam12802 1006007011219 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1006007011220 classical (c) SDR, subgroup 2; Region: SDR_c2; cd05370 1006007011221 putative NAD(P) binding site [chemical binding]; other site 1006007011222 active site 1006007011223 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 1006007011224 active site 1006007011225 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1006007011226 catalytic tetrad [active] 1006007011227 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1006007011228 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1006007011229 Bacterial transcriptional regulator; Region: IclR; pfam01614 1006007011230 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1006007011231 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1006007011232 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1006007011233 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1006007011234 Na binding site [ion binding]; other site 1006007011235 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1006007011236 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1006007011237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007011238 Walker A/P-loop; other site 1006007011239 ATP binding site [chemical binding]; other site 1006007011240 Q-loop/lid; other site 1006007011241 ABC transporter signature motif; other site 1006007011242 Walker B; other site 1006007011243 D-loop; other site 1006007011244 H-loop/switch region; other site 1006007011245 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1006007011246 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1006007011247 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1006007011248 Walker A/P-loop; other site 1006007011249 ATP binding site [chemical binding]; other site 1006007011250 Q-loop/lid; other site 1006007011251 ABC transporter signature motif; other site 1006007011252 Walker B; other site 1006007011253 D-loop; other site 1006007011254 H-loop/switch region; other site 1006007011255 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR5; cd08271 1006007011256 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1006007011257 putative NAD(P) binding site [chemical binding]; other site 1006007011258 substrate binding site [chemical binding]; other site 1006007011259 Predicted transcriptional regulators [Transcription]; Region: COG1733 1006007011260 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 1006007011261 dimerization interface [polypeptide binding]; other site 1006007011262 putative DNA binding site [nucleotide binding]; other site 1006007011263 putative Zn2+ binding site [ion binding]; other site 1006007011264 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1006007011265 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1006007011266 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1006007011267 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1006007011268 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1006007011269 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 1006007011270 S-adenosylmethionine binding site [chemical binding]; other site 1006007011271 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1006007011272 Predicted membrane protein [Function unknown]; Region: COG1511 1006007011273 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1006007011274 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 1006007011275 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1006007011276 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1006007011277 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007011278 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007011279 Coenzyme A binding pocket [chemical binding]; other site 1006007011280 FeoA domain; Region: FeoA; pfam04023 1006007011281 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1006007011282 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1006007011283 G1 box; other site 1006007011284 GTP/Mg2+ binding site [chemical binding]; other site 1006007011285 Switch I region; other site 1006007011286 G2 box; other site 1006007011287 G3 box; other site 1006007011288 Switch II region; other site 1006007011289 G4 box; other site 1006007011290 G5 box; other site 1006007011291 Nucleoside recognition; Region: Gate; pfam07670 1006007011292 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1006007011293 Nucleoside recognition; Region: Gate; pfam07670 1006007011294 Virus attachment protein p12 family; Region: P12; pfam12669 1006007011295 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 1006007011296 Predicted transcriptional regulators [Transcription]; Region: COG1733 1006007011297 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1006007011298 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1006007011299 active site 1006007011300 dimer interface [polypeptide binding]; other site 1006007011301 magnesium binding site [ion binding]; other site 1006007011302 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1006007011303 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 1006007011304 tetramer interface [polypeptide binding]; other site 1006007011305 active site 1006007011306 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1006007011307 NMT1/THI5 like; Region: NMT1; pfam09084 1006007011308 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1006007011309 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1006007011310 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 1006007011311 dimer interface [polypeptide binding]; other site 1006007011312 conserved gate region; other site 1006007011313 putative PBP binding loops; other site 1006007011314 ABC-ATPase subunit interface; other site 1006007011315 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1006007011316 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1006007011317 Walker A/P-loop; other site 1006007011318 ATP binding site [chemical binding]; other site 1006007011319 Q-loop/lid; other site 1006007011320 ABC transporter signature motif; other site 1006007011321 Walker B; other site 1006007011322 D-loop; other site 1006007011323 H-loop/switch region; other site 1006007011324 Putative transcription activator [Transcription]; Region: TenA; COG0819 1006007011325 acetylornithine deacetylase; Validated; Region: PRK08596 1006007011326 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1006007011327 metal binding site [ion binding]; metal-binding site 1006007011328 Uncharacterized conserved protein [Function unknown]; Region: COG3589 1006007011329 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 1006007011330 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 1006007011331 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1006007011332 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 1006007011333 putative active site [active] 1006007011334 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 1006007011335 dimer interaction site [polypeptide binding]; other site 1006007011336 substrate-binding tunnel; other site 1006007011337 active site 1006007011338 catalytic site [active] 1006007011339 substrate binding site [chemical binding]; other site 1006007011340 endonuclease VIII; Provisional; Region: PRK10445 1006007011341 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 1006007011342 DNA binding site [nucleotide binding] 1006007011343 catalytic residue [active] 1006007011344 putative catalytic residues [active] 1006007011345 H2TH interface [polypeptide binding]; other site 1006007011346 intercalation triad [nucleotide binding]; other site 1006007011347 substrate specificity determining residue; other site 1006007011348 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1006007011349 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1006007011350 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007011351 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007011352 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1006007011353 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 1006007011354 ABC-ATPase subunit interface; other site 1006007011355 dimer interface [polypeptide binding]; other site 1006007011356 putative PBP binding regions; other site 1006007011357 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1006007011358 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 1006007011359 ABC-ATPase subunit interface; other site 1006007011360 dimer interface [polypeptide binding]; other site 1006007011361 putative PBP binding regions; other site 1006007011362 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 1006007011363 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 1006007011364 siderophore binding site; other site 1006007011365 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1006007011366 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1006007011367 Flavin binding site [chemical binding]; other site 1006007011368 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 1006007011369 dimer interface [polypeptide binding]; other site 1006007011370 active site 1006007011371 insertion regions; other site 1006007011372 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1006007011373 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1006007011374 active site 1006007011375 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1006007011376 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1006007011377 active site 1006007011378 non-prolyl cis peptide bond; other site 1006007011379 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1006007011380 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1006007011381 Walker A/P-loop; other site 1006007011382 ATP binding site [chemical binding]; other site 1006007011383 Q-loop/lid; other site 1006007011384 ABC transporter signature motif; other site 1006007011385 Walker B; other site 1006007011386 D-loop; other site 1006007011387 H-loop/switch region; other site 1006007011388 NIL domain; Region: NIL; pfam09383 1006007011389 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 1006007011390 conserved gate region; other site 1006007011391 ABC-ATPase subunit interface; other site 1006007011392 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1006007011393 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1006007011394 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1006007011395 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1006007011396 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 1006007011397 motif II; other site 1006007011398 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1006007011399 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1006007011400 agmatinase; Region: agmatinase; TIGR01230 1006007011401 oligomer interface [polypeptide binding]; other site 1006007011402 putative active site [active] 1006007011403 Mn binding site [ion binding]; other site 1006007011404 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 1006007011405 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 1006007011406 inhibitor-cofactor binding pocket; inhibition site 1006007011407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007011408 catalytic residue [active] 1006007011409 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 1006007011410 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1006007011411 tetramerization interface [polypeptide binding]; other site 1006007011412 NAD(P) binding site [chemical binding]; other site 1006007011413 catalytic residues [active] 1006007011414 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007011415 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007011416 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1006007011417 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1006007011418 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1006007011419 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1006007011420 Walker A/P-loop; other site 1006007011421 ATP binding site [chemical binding]; other site 1006007011422 Q-loop/lid; other site 1006007011423 ABC transporter signature motif; other site 1006007011424 Walker B; other site 1006007011425 D-loop; other site 1006007011426 H-loop/switch region; other site 1006007011427 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 1006007011428 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 1006007011429 dimer interface [polypeptide binding]; other site 1006007011430 conserved gate region; other site 1006007011431 putative PBP binding loops; other site 1006007011432 ABC-ATPase subunit interface; other site 1006007011433 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1006007011434 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 1006007011435 S-adenosylmethionine binding site [chemical binding]; other site 1006007011436 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1006007011437 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1006007011438 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1006007011439 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007011440 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007011441 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1006007011442 dimerization interface [polypeptide binding]; other site 1006007011443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1006007011444 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1006007011445 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 1006007011446 active site 1006007011447 phosphorylation site [posttranslational modification] 1006007011448 intermolecular recognition site; other site 1006007011449 dimerization interface [polypeptide binding]; other site 1006007011450 Transcriptional regulator; Region: CitT; pfam12431 1006007011451 HTH domain; Region: HTH_11; cl17392 1006007011452 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1006007011453 PAS domain; Region: PAS; smart00091 1006007011454 putative active site [active] 1006007011455 heme pocket [chemical binding]; other site 1006007011456 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 1006007011457 ATP binding site [chemical binding]; other site 1006007011458 Mg2+ binding site [ion binding]; other site 1006007011459 G-X-G motif; other site 1006007011460 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 1006007011461 Citrate transporter; Region: CitMHS; pfam03600 1006007011462 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 1006007011463 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1006007011464 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 1006007011465 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1006007011466 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 1006007011467 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1006007011468 DNA-binding site [nucleotide binding]; DNA binding site 1006007011469 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 1006007011470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007011471 homodimer interface [polypeptide binding]; other site 1006007011472 catalytic residue [active] 1006007011473 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1006007011474 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007011475 Coenzyme A binding pocket [chemical binding]; other site 1006007011476 YolD-like protein; Region: YolD; pfam08863 1006007011477 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1006007011478 Sulfatase; Region: Sulfatase; pfam00884 1006007011479 YolD-like protein; Region: YolD; pfam08863 1006007011480 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1006007011481 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 1006007011482 non-specific DNA binding site [nucleotide binding]; other site 1006007011483 salt bridge; other site 1006007011484 sequence-specific DNA binding site [nucleotide binding]; other site 1006007011485 ApbE family; Region: ApbE; pfam02424 1006007011486 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1006007011487 glucose-1-dehydrogenase; Provisional; Region: PRK08936 1006007011488 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 1006007011489 NAD binding site [chemical binding]; other site 1006007011490 homodimer interface [polypeptide binding]; other site 1006007011491 active site 1006007011492 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 1006007011493 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1006007011494 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 1006007011495 active site 1006007011496 phosphorylation site [posttranslational modification] 1006007011497 intermolecular recognition site; other site 1006007011498 dimerization interface [polypeptide binding]; other site 1006007011499 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1006007011500 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1006007011501 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 1006007011502 putative active site [active] 1006007011503 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 1006007011504 ATP binding site [chemical binding]; other site 1006007011505 Mg2+ binding site [ion binding]; other site 1006007011506 G-X-G motif; other site 1006007011507 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1006007011508 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1006007011509 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1006007011510 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1006007011511 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1006007011512 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 1006007011513 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 1006007011514 inhibitor-cofactor binding pocket; inhibition site 1006007011515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007011516 catalytic residue [active] 1006007011517 AAA domain; Region: AAA_26; pfam13500 1006007011518 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1006007011519 BioY family; Region: BioY; pfam02632 1006007011520 S-methylmethionine transporter; Provisional; Region: PRK11387 1006007011521 nucleoside transporter; Region: nupC; TIGR00804 1006007011522 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1006007011523 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1006007011524 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1006007011525 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1006007011526 dihydropteroate synthase; Region: DHPS; TIGR01496 1006007011527 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 1006007011528 substrate binding pocket [chemical binding]; other site 1006007011529 dimer interface [polypeptide binding]; other site 1006007011530 inhibitor binding site; inhibition site 1006007011531 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1006007011532 active site 1006007011533 catalytic residues [active] 1006007011534 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1006007011535 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1006007011536 FtsX-like permease family; Region: FtsX; pfam02687 1006007011537 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1006007011538 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1006007011539 Walker A/P-loop; other site 1006007011540 ATP binding site [chemical binding]; other site 1006007011541 Q-loop/lid; other site 1006007011542 ABC transporter signature motif; other site 1006007011543 Walker B; other site 1006007011544 D-loop; other site 1006007011545 H-loop/switch region; other site 1006007011546 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1006007011547 HlyD family secretion protein; Region: HlyD_3; pfam13437 1006007011548 Yip1 domain; Region: Yip1; pfam04893 1006007011549 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 1006007011550 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 1006007011551 homodimer interface [polypeptide binding]; other site 1006007011552 substrate-cofactor binding pocket; other site 1006007011553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007011554 catalytic residue [active] 1006007011555 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1006007011556 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1006007011557 Walker A/P-loop; other site 1006007011558 ATP binding site [chemical binding]; other site 1006007011559 Q-loop/lid; other site 1006007011560 ABC transporter signature motif; other site 1006007011561 Walker B; other site 1006007011562 D-loop; other site 1006007011563 H-loop/switch region; other site 1006007011564 TIGR00245 family protein; Region: TIGR00245 1006007011565 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1006007011566 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1006007011567 iron-sulfur cluster [ion binding]; other site 1006007011568 [2Fe-2S] cluster binding site [ion binding]; other site 1006007011569 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1006007011570 hydrophobic ligand binding site; other site 1006007011571 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1006007011572 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 1006007011573 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 1006007011574 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 1006007011575 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1006007011576 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 1006007011577 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 1006007011578 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1006007011579 Na binding site [ion binding]; other site 1006007011580 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1006007011581 amino acid carrier protein; Region: agcS; TIGR00835 1006007011582 glutaminase; Reviewed; Region: PRK12357 1006007011583 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1006007011584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007011585 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 1006007011586 ATP binding site [chemical binding]; other site 1006007011587 Mg2+ binding site [ion binding]; other site 1006007011588 G-X-G motif; other site 1006007011589 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007011590 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 1006007011591 active site 1006007011592 phosphorylation site [posttranslational modification] 1006007011593 intermolecular recognition site; other site 1006007011594 dimerization interface [polypeptide binding]; other site 1006007011595 YcbB domain; Region: YcbB; pfam08664 1006007011596 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 1006007011597 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1006007011598 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1006007011599 Coenzyme A transferase; Region: CoA_trans; cl17247 1006007011600 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1006007011601 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1006007011602 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1006007011603 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1006007011604 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1006007011605 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1006007011606 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 1006007011607 putative substrate translocation pore; other site 1006007011608 Predicted transcriptional regulators [Transcription]; Region: COG1733 1006007011609 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 1006007011610 dimerization interface [polypeptide binding]; other site 1006007011611 putative DNA binding site [nucleotide binding]; other site 1006007011612 putative Zn2+ binding site [ion binding]; other site 1006007011613 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 1006007011614 acetolactate synthase; Reviewed; Region: PRK08617 1006007011615 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1006007011616 PYR/PP interface [polypeptide binding]; other site 1006007011617 dimer interface [polypeptide binding]; other site 1006007011618 TPP binding site [chemical binding]; other site 1006007011619 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1006007011620 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1006007011621 TPP-binding site [chemical binding]; other site 1006007011622 dimer interface [polypeptide binding]; other site 1006007011623 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1006007011624 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; cd02883 1006007011625 nudix motif; other site 1006007011626 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1006007011627 active site 1006007011628 metal-binding site 1006007011629 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 1006007011630 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1006007011631 catalytic residue [active] 1006007011632 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1006007011633 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 1006007011634 PYR/PP interface [polypeptide binding]; other site 1006007011635 dimer interface [polypeptide binding]; other site 1006007011636 TPP binding site [chemical binding]; other site 1006007011637 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 1006007011638 TPP-binding site; other site 1006007011639 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1006007011640 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 1006007011641 tetramer interface [polypeptide binding]; other site 1006007011642 active site 1006007011643 Mg2+/Mn2+ binding site [ion binding]; other site 1006007011644 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 1006007011645 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1006007011646 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1006007011647 Phage phiEco32-like COOH.NH2 ligase-type 2; Region: COOH-NH2_lig; pfam14395 1006007011648 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 1006007011649 spermidine synthase; Provisional; Region: PRK00811 1006007011650 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 1006007011651 S-adenosylmethionine binding site [chemical binding]; other site 1006007011652 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1006007011653 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 1006007011654 putative substrate translocation pore; other site 1006007011655 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1006007011656 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 1006007011657 [4Fe-4S] binding site [ion binding]; other site 1006007011658 molybdopterin cofactor binding site; other site 1006007011659 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 1006007011660 molybdopterin cofactor binding site; other site 1006007011661 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1006007011662 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1006007011663 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1006007011664 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1006007011665 antiholin-like protein LrgB; Provisional; Region: PRK04288 1006007011666 murein hydrolase regulator LrgA; Provisional; Region: PRK04125 1006007011667 two-component response regulator; Provisional; Region: PRK14084 1006007011668 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 1006007011669 active site 1006007011670 phosphorylation site [posttranslational modification] 1006007011671 intermolecular recognition site; other site 1006007011672 dimerization interface [polypeptide binding]; other site 1006007011673 LytTr DNA-binding domain; Region: LytTR; pfam04397 1006007011674 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1006007011675 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1006007011676 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1006007011677 Histidine kinase; Region: His_kinase; pfam06580 1006007011678 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1006007011679 ATP binding site [chemical binding]; other site 1006007011680 Mg2+ binding site [ion binding]; other site 1006007011681 G-X-G motif; other site 1006007011682 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1006007011683 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1006007011684 NAD binding site [chemical binding]; other site 1006007011685 sugar binding site [chemical binding]; other site 1006007011686 divalent metal binding site [ion binding]; other site 1006007011687 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1006007011688 dimer interface [polypeptide binding]; other site 1006007011689 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 1006007011690 active site 1006007011691 methionine cluster; other site 1006007011692 phosphorylation site [posttranslational modification] 1006007011693 metal binding site [ion binding]; metal-binding site 1006007011694 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1006007011695 PTS system, lactose/cellobiose family IIC component; Region: lacE; TIGR00410 1006007011696 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 1006007011697 active site 1006007011698 P-loop; other site 1006007011699 phosphorylation site [posttranslational modification] 1006007011700 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1006007011701 HTH domain; Region: HTH_11; pfam08279 1006007011702 Mga helix-turn-helix domain; Region: Mga; pfam05043 1006007011703 PRD domain; Region: PRD; pfam00874 1006007011704 PRD domain; Region: PRD; pfam00874 1006007011705 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 1006007011706 active site 1006007011707 P-loop; other site 1006007011708 phosphorylation site [posttranslational modification] 1006007011709 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 1006007011710 active site 1006007011711 phosphorylation site [posttranslational modification] 1006007011712 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007011713 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007011714 WHG domain; Region: WHG; pfam13305 1006007011715 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1006007011716 Heat induced stress protein YflT; Region: YflT; pfam11181 1006007011717 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1006007011718 Class I aldolases; Region: Aldolase_Class_I; cd00945 1006007011719 catalytic residue [active] 1006007011720 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1006007011721 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 1006007011722 ATP binding site [chemical binding]; other site 1006007011723 Mg++ binding site [ion binding]; other site 1006007011724 motif III; other site 1006007011725 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 1006007011726 nucleotide binding region [chemical binding]; other site 1006007011727 ATP-binding site [chemical binding]; other site 1006007011728 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 1006007011729 RNA binding site [nucleotide binding]; other site 1006007011730 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1006007011731 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 1006007011732 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1006007011733 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 1006007011734 putative DNA binding site [nucleotide binding]; other site 1006007011735 putative Zn2+ binding site [ion binding]; other site 1006007011736 AsnC family; Region: AsnC_trans_reg; pfam01037 1006007011737 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007011738 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 1006007011739 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1006007011740 GntP family permease; Region: GntP_permease; pfam02447 1006007011741 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1006007011742 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1006007011743 Na binding site [ion binding]; other site 1006007011744 putative substrate binding site [chemical binding]; other site 1006007011745 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1006007011746 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1006007011747 N- and C-terminal domain interface [polypeptide binding]; other site 1006007011748 active site 1006007011749 catalytic site [active] 1006007011750 metal binding site [ion binding]; metal-binding site 1006007011751 carbohydrate binding site [chemical binding]; other site 1006007011752 ATP binding site [chemical binding]; other site 1006007011753 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1006007011754 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1006007011755 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1006007011756 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1006007011757 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 1006007011758 putative active site [active] 1006007011759 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007011760 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007011761 Coenzyme A binding pocket [chemical binding]; other site 1006007011762 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1006007011763 tetramer interfaces [polypeptide binding]; other site 1006007011764 binuclear metal-binding site [ion binding]; other site 1006007011765 Putative esterase; Region: Esterase; pfam00756 1006007011766 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1006007011767 hypothetical protein; Provisional; Region: PRK13679 1006007011768 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1006007011769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007011770 Coenzyme A binding pocket [chemical binding]; other site 1006007011771 Predicted membrane protein [Function unknown]; Region: COG2323 1006007011772 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1006007011773 Part of AAA domain; Region: AAA_19; pfam13245 1006007011774 Family description; Region: UvrD_C_2; pfam13538 1006007011775 Peptidase family M48; Region: Peptidase_M48; cl12018 1006007011776 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 1006007011777 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 1006007011778 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 1006007011779 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1006007011780 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1006007011781 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1006007011782 TrkA-N domain; Region: TrkA_N; pfam02254 1006007011783 TrkA-C domain; Region: TrkA_C; pfam02080 1006007011784 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1006007011785 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1006007011786 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1006007011787 Divalent cation transporter; Region: MgtE; pfam01769 1006007011788 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 1006007011789 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1006007011790 active site 1006007011791 metal binding site [ion binding]; metal-binding site 1006007011792 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1006007011793 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 1006007011794 RNA binding surface [nucleotide binding]; other site 1006007011795 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1006007011796 active site 1006007011797 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1006007011798 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1006007011799 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1006007011800 synthetase active site [active] 1006007011801 NTP binding site [chemical binding]; other site 1006007011802 metal binding site [ion binding]; metal-binding site 1006007011803 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1006007011804 putative active site [active] 1006007011805 putative metal binding residues [ion binding]; other site 1006007011806 signature motif; other site 1006007011807 putative triphosphate binding site [ion binding]; other site 1006007011808 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1006007011809 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 1006007011810 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1006007011811 catalytic residue [active] 1006007011812 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1006007011813 apolar tunnel; other site 1006007011814 heme binding site [chemical binding]; other site 1006007011815 dimerization interface [polypeptide binding]; other site 1006007011816 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1006007011817 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1006007011818 oligoendopeptidase F; Region: pepF; TIGR00181 1006007011819 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1006007011820 active site 1006007011821 Zn binding site [ion binding]; other site 1006007011822 Competence protein CoiA-like family; Region: CoiA; cl11541 1006007011823 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1006007011824 putative active site [active] 1006007011825 catalytic site [active] 1006007011826 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1006007011827 PLD-like domain; Region: PLDc_2; pfam13091 1006007011828 putative active site [active] 1006007011829 catalytic site [active] 1006007011830 adaptor protein; Provisional; Region: PRK02315 1006007011831 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1006007011832 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 1006007011833 Malonate transporter MadL subunit; Region: MadL; cl04273 1006007011834 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007011835 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007011836 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 1006007011837 dimerization interface [polypeptide binding]; other site 1006007011838 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 1006007011839 ArsC family; Region: ArsC; pfam03960 1006007011840 putative catalytic residues [active] 1006007011841 thiol/disulfide switch; other site 1006007011842 putrescine transporter; Provisional; Region: potE; PRK10655 1006007011843 Spore germination protein; Region: Spore_permease; cl17796 1006007011844 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1006007011845 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007011846 Coenzyme A binding pocket [chemical binding]; other site 1006007011847 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1006007011848 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1006007011849 Walker A/P-loop; other site 1006007011850 ATP binding site [chemical binding]; other site 1006007011851 Q-loop/lid; other site 1006007011852 ABC transporter signature motif; other site 1006007011853 Walker B; other site 1006007011854 D-loop; other site 1006007011855 H-loop/switch region; other site 1006007011856 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1006007011857 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1006007011858 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1006007011859 Walker A/P-loop; other site 1006007011860 ATP binding site [chemical binding]; other site 1006007011861 Q-loop/lid; other site 1006007011862 ABC transporter signature motif; other site 1006007011863 Walker B; other site 1006007011864 D-loop; other site 1006007011865 H-loop/switch region; other site 1006007011866 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1006007011867 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1006007011868 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1006007011869 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 1006007011870 dimer interface [polypeptide binding]; other site 1006007011871 conserved gate region; other site 1006007011872 putative PBP binding loops; other site 1006007011873 ABC-ATPase subunit interface; other site 1006007011874 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1006007011875 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 1006007011876 dimer interface [polypeptide binding]; other site 1006007011877 conserved gate region; other site 1006007011878 putative PBP binding loops; other site 1006007011879 ABC-ATPase subunit interface; other site 1006007011880 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1006007011881 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1006007011882 peptide binding site [polypeptide binding]; other site 1006007011883 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1006007011884 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1006007011885 active site 1006007011886 HIGH motif; other site 1006007011887 dimer interface [polypeptide binding]; other site 1006007011888 KMSKS motif; other site 1006007011889 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 1006007011890 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1006007011891 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1006007011892 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 1006007011893 dimer interface [polypeptide binding]; other site 1006007011894 conserved gate region; other site 1006007011895 putative PBP binding loops; other site 1006007011896 ABC-ATPase subunit interface; other site 1006007011897 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1006007011898 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 1006007011899 dimer interface [polypeptide binding]; other site 1006007011900 conserved gate region; other site 1006007011901 ABC-ATPase subunit interface; other site 1006007011902 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1006007011903 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 1006007011904 peptide binding site [polypeptide binding]; other site 1006007011905 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1006007011906 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1006007011907 Walker A/P-loop; other site 1006007011908 ATP binding site [chemical binding]; other site 1006007011909 Q-loop/lid; other site 1006007011910 ABC transporter signature motif; other site 1006007011911 Walker B; other site 1006007011912 D-loop; other site 1006007011913 H-loop/switch region; other site 1006007011914 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1006007011915 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1006007011916 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1006007011917 Walker A/P-loop; other site 1006007011918 ATP binding site [chemical binding]; other site 1006007011919 Q-loop/lid; other site 1006007011920 ABC transporter signature motif; other site 1006007011921 Walker B; other site 1006007011922 D-loop; other site 1006007011923 H-loop/switch region; other site 1006007011924 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1006007011925 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; pfam10026 1006007011926 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1006007011927 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 1006007011928 dimer interface [polypeptide binding]; other site 1006007011929 active site 1006007011930 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1006007011931 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 1006007011932 dimer interface [polypeptide binding]; other site 1006007011933 active site 1006007011934 CoA binding pocket [chemical binding]; other site 1006007011935 ComZ; Region: ComZ; pfam10815 1006007011936 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1006007011937 extended (e) SDRs; Region: SDR_e; cd08946 1006007011938 NAD(P) binding site [chemical binding]; other site 1006007011939 active site 1006007011940 substrate binding site [chemical binding]; other site 1006007011941 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 1006007011942 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1006007011943 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1006007011944 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1006007011945 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1006007011946 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1006007011947 galactokinase; Provisional; Region: PRK05322 1006007011948 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1006007011949 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1006007011950 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1006007011951 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1006007011952 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007011953 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1006007011954 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007011955 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1006007011956 Clp amino terminal domain; Region: Clp_N; pfam02861 1006007011957 Clp amino terminal domain; Region: Clp_N; pfam02861 1006007011958 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 1006007011959 Walker A motif; other site 1006007011960 ATP binding site [chemical binding]; other site 1006007011961 Walker B motif; other site 1006007011962 arginine finger; other site 1006007011963 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 1006007011964 Walker A motif; other site 1006007011965 ATP binding site [chemical binding]; other site 1006007011966 Walker B motif; other site 1006007011967 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1006007011968 YjzC-like protein; Region: YjzC; pfam14168 1006007011969 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1006007011970 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1006007011971 NAD(P) binding site [chemical binding]; other site 1006007011972 putative active site [active] 1006007011973 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1006007011974 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1006007011975 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1006007011976 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 1006007011977 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1006007011978 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1006007011979 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1006007011980 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1006007011981 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1006007011982 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 1006007011983 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1006007011984 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1006007011985 catalytic site [active] 1006007011986 subunit interface [polypeptide binding]; other site 1006007011987 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 1006007011988 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 1006007011989 inhibitor-cofactor binding pocket; inhibition site 1006007011990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007011991 catalytic residue [active] 1006007011992 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 1006007011993 nucleotide binding site [chemical binding]; other site 1006007011994 N-acetyl-L-glutamate binding site [chemical binding]; other site 1006007011995 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1006007011996 active site pocket [active] 1006007011997 heterotetramer interface [polypeptide binding]; other site 1006007011998 cleavage site 1006007011999 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1006007012000 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1006007012001 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 1006007012002 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1006007012003 ligand binding site [chemical binding]; other site 1006007012004 flexible hinge region; other site 1006007012005 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 1006007012006 putative switch regulator; other site 1006007012007 non-specific DNA interactions [nucleotide binding]; other site 1006007012008 DNA binding site [nucleotide binding] 1006007012009 sequence specific DNA binding site [nucleotide binding]; other site 1006007012010 putative cAMP binding site [chemical binding]; other site 1006007012011 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1006007012012 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 1006007012013 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1006007012014 active site 1006007012015 motif I; other site 1006007012016 motif II; other site 1006007012017 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 1006007012018 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007012019 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007012020 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007012021 EDD domain protein, DegV family; Region: DegV; TIGR00762 1006007012022 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1006007012023 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1006007012024 S1 domain; Region: S1_2; pfam13509 1006007012025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1006007012026 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1006007012027 short chain dehydrogenase; Provisional; Region: PRK06701 1006007012028 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1006007012029 NAD binding site [chemical binding]; other site 1006007012030 metal binding site [ion binding]; metal-binding site 1006007012031 active site 1006007012032 PAS domain; Region: PAS_9; pfam13426 1006007012033 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1006007012034 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 1006007012035 Walker A motif; other site 1006007012036 ATP binding site [chemical binding]; other site 1006007012037 Walker B motif; other site 1006007012038 arginine finger; other site 1006007012039 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1006007012040 potential frameshift: common BLAST hit: gi|295702804|ref|YP_003595879.1| amino acid permease 1006007012041 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 1006007012042 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 1006007012043 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 1006007012044 putative metal binding site [ion binding]; other site 1006007012045 putative dimer interface [polypeptide binding]; other site 1006007012046 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 1006007012047 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 1006007012048 inhibitor-cofactor binding pocket; inhibition site 1006007012049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007012050 catalytic residue [active] 1006007012051 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 1006007012052 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 1006007012053 Glutamate binding site [chemical binding]; other site 1006007012054 homodimer interface [polypeptide binding]; other site 1006007012055 NAD binding site [chemical binding]; other site 1006007012056 catalytic residues [active] 1006007012057 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007012058 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007012059 DNA binding site [nucleotide binding] 1006007012060 domain linker motif; other site 1006007012061 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 1006007012062 putative dimerization interface [polypeptide binding]; other site 1006007012063 putative ligand binding site [chemical binding]; other site 1006007012064 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1006007012065 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1006007012066 active site 1006007012067 catalytic site [active] 1006007012068 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 1006007012069 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1006007012070 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1006007012071 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1006007012072 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1006007012073 phytoene desaturase; Region: crtI_fam; TIGR02734 1006007012074 phytoene desaturase; Region: crtI_fam; TIGR02734 1006007012075 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 1006007012076 active site 1006007012077 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1006007012078 dimer interface [polypeptide binding]; other site 1006007012079 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 1006007012080 Ligand Binding Site [chemical binding]; other site 1006007012081 Molecular Tunnel; other site 1006007012082 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 1006007012083 Predicted membrane protein [Function unknown]; Region: COG2311 1006007012084 Protein of unknown function (DUF418); Region: DUF418; cl12135 1006007012085 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1006007012086 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1006007012087 Protein of unknown function (DUF2539); Region: DUF2539; pfam10803 1006007012088 Spore germination protein GerPC; Region: GerPC; pfam10737 1006007012089 Protein of unknown function (DUF2772); Region: DUF2772; pfam10970 1006007012090 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 1006007012091 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 1006007012092 active site 1006007012093 exonuclease SbcC; Region: sbcc; TIGR00618 1006007012094 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1006007012095 Walker A/P-loop; other site 1006007012096 ATP binding site [chemical binding]; other site 1006007012097 Q-loop/lid; other site 1006007012098 ABC transporter signature motif; other site 1006007012099 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1006007012100 ABC transporter signature motif; other site 1006007012101 Walker B; other site 1006007012102 D-loop; other site 1006007012103 H-loop/switch region; other site 1006007012104 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1006007012105 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1006007012106 active site 1006007012107 metal binding site [ion binding]; metal-binding site 1006007012108 DNA binding site [nucleotide binding] 1006007012109 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1006007012110 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1006007012111 Part of AAA domain; Region: AAA_19; pfam13245 1006007012112 Family description; Region: UvrD_C_2; pfam13538 1006007012113 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1006007012114 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1006007012115 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1006007012116 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1006007012117 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1006007012118 NAD(P) binding site [chemical binding]; other site 1006007012119 homotetramer interface [polypeptide binding]; other site 1006007012120 homodimer interface [polypeptide binding]; other site 1006007012121 active site 1006007012122 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1006007012123 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1006007012124 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1006007012125 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1006007012126 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1006007012127 IDEAL domain; Region: IDEAL; pfam08858 1006007012128 isocitrate lyase; Provisional; Region: PRK15063 1006007012129 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 1006007012130 tetramer interface [polypeptide binding]; other site 1006007012131 active site 1006007012132 Mg2+/Mn2+ binding site [ion binding]; other site 1006007012133 potential frameshift: common BLAST hit: gi|294497401|ref|YP_003561101.1| peptidase M48 1006007012134 Peptidase family M48; Region: Peptidase_M48; pfam01435 1006007012135 enoyl-CoA hydratase; Provisional; Region: PRK07657 1006007012136 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 1006007012137 substrate binding site [chemical binding]; other site 1006007012138 oxyanion hole (OAH) forming residues; other site 1006007012139 trimer interface [polypeptide binding]; other site 1006007012140 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 1006007012141 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1006007012142 acyl-activating enzyme (AAE) consensus motif; other site 1006007012143 putative AMP binding site [chemical binding]; other site 1006007012144 putative active site [active] 1006007012145 putative CoA binding site [chemical binding]; other site 1006007012146 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1006007012147 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1006007012148 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1006007012149 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1006007012150 Response regulator receiver domain; Region: Response_reg; pfam00072 1006007012151 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 1006007012152 active site 1006007012153 phosphorylation site [posttranslational modification] 1006007012154 intermolecular recognition site; other site 1006007012155 dimerization interface [polypeptide binding]; other site 1006007012156 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007012157 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1006007012158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1006007012159 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1006007012160 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 1006007012161 dimerization interface [polypeptide binding]; other site 1006007012162 Histidine kinase; Region: His_kinase; pfam06580 1006007012163 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 1006007012164 ATP binding site [chemical binding]; other site 1006007012165 Mg2+ binding site [ion binding]; other site 1006007012166 G-X-G motif; other site 1006007012167 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1006007012168 PBP superfamily domain; Region: PBP_like_2; cl17296 1006007012169 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1006007012170 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1006007012171 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1006007012172 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1006007012173 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1006007012174 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1006007012175 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1006007012176 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 1006007012177 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1006007012178 ferrochelatase; Provisional; Region: PRK12435 1006007012179 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 1006007012180 C-terminal domain interface [polypeptide binding]; other site 1006007012181 active site 1006007012182 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 1006007012183 active site 1006007012184 N-terminal domain interface [polypeptide binding]; other site 1006007012185 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 1006007012186 substrate binding site [chemical binding]; other site 1006007012187 active site 1006007012188 Transglycosylase; Region: Transgly; pfam00912 1006007012189 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1006007012190 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1006007012191 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1006007012192 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1006007012193 active site 1006007012194 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1006007012195 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1006007012196 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1006007012197 metal binding site [ion binding]; metal-binding site 1006007012198 dimer interface [polypeptide binding]; other site 1006007012199 EcsC protein family; Region: EcsC; pfam12787 1006007012200 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 1006007012201 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1006007012202 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1006007012203 Walker A/P-loop; other site 1006007012204 ATP binding site [chemical binding]; other site 1006007012205 Q-loop/lid; other site 1006007012206 ABC transporter signature motif; other site 1006007012207 Walker B; other site 1006007012208 D-loop; other site 1006007012209 H-loop/switch region; other site 1006007012210 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1006007012211 HIT family signature motif; other site 1006007012212 catalytic residue [active] 1006007012213 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1006007012214 yrhL-like subfamily of SGNH-hydrolases, 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_yrhL_like; cd01840 1006007012215 catalytic triad [active] 1006007012216 catalytic triad [active] 1006007012217 oxyanion hole [active] 1006007012218 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1006007012219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007012220 Coenzyme A binding pocket [chemical binding]; other site 1006007012221 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007012222 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1006007012223 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1006007012224 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1006007012225 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1006007012226 catalytic residue [active] 1006007012227 YtxH-like protein; Region: YtxH; cl02079 1006007012228 transcriptional regulator Hpr; Provisional; Region: PRK13777 1006007012229 MarR family; Region: MarR; pfam01047 1006007012230 Protein of unknown function (DUF1878); Region: DUF1878; pfam08963 1006007012231 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 1006007012232 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1006007012233 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 1006007012234 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1006007012235 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 1006007012236 generic binding surface II; other site 1006007012237 generic binding surface I; other site 1006007012238 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1006007012239 Zn2+ binding site [ion binding]; other site 1006007012240 Mg2+ binding site [ion binding]; other site 1006007012241 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1006007012242 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1006007012243 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1006007012244 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 1006007012245 Walker A/P-loop; other site 1006007012246 ATP binding site [chemical binding]; other site 1006007012247 Q-loop/lid; other site 1006007012248 ABC transporter signature motif; other site 1006007012249 Walker B; other site 1006007012250 D-loop; other site 1006007012251 H-loop/switch region; other site 1006007012252 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1006007012253 YhzD-like protein; Region: YhzD; pfam14120 1006007012254 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 1006007012255 IHF dimer interface [polypeptide binding]; other site 1006007012256 IHF - DNA interface [nucleotide binding]; other site 1006007012257 enoyl-CoA hydratase; Provisional; Region: PRK07659 1006007012258 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 1006007012259 substrate binding site [chemical binding]; other site 1006007012260 oxyanion hole (OAH) forming residues; other site 1006007012261 trimer interface [polypeptide binding]; other site 1006007012262 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1006007012263 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1006007012264 dimer interface [polypeptide binding]; other site 1006007012265 acyl-activating enzyme (AAE) consensus motif; other site 1006007012266 putative active site [active] 1006007012267 AMP binding site [chemical binding]; other site 1006007012268 putative CoA binding site [chemical binding]; other site 1006007012269 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 1006007012270 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; cl15377 1006007012271 FeS/SAM binding site; other site 1006007012272 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 1006007012273 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1006007012274 active site 1006007012275 motif I; other site 1006007012276 motif II; other site 1006007012277 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 1006007012278 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1006007012279 hypothetical protein; Provisional; Region: PRK13676 1006007012280 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 1006007012281 YheC/D like ATP-grasp; Region: ATPgrasp_YheCD; pfam14398 1006007012282 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1006007012283 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1006007012284 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1006007012285 Walker A/P-loop; other site 1006007012286 ATP binding site [chemical binding]; other site 1006007012287 Q-loop/lid; other site 1006007012288 ABC transporter signature motif; other site 1006007012289 Walker B; other site 1006007012290 D-loop; other site 1006007012291 H-loop/switch region; other site 1006007012292 TOBE domain; Region: TOBE; pfam03459 1006007012293 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1006007012294 Domain of unknown function DUF21; Region: DUF21; pfam01595 1006007012295 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1006007012296 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 1006007012297 Transporter associated domain; Region: CorC_HlyC; smart01091 1006007012298 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1006007012299 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1006007012300 NAD binding site [chemical binding]; other site 1006007012301 substrate binding site [chemical binding]; other site 1006007012302 putative active site [active] 1006007012303 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 1006007012304 catalytic core [active] 1006007012305 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 1006007012306 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 1006007012307 dimer interface [polypeptide binding]; other site 1006007012308 substrate binding site [chemical binding]; other site 1006007012309 ATP binding site [chemical binding]; other site 1006007012310 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 1006007012311 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 1006007012312 ATP binding site [chemical binding]; other site 1006007012313 substrate interface [chemical binding]; other site 1006007012314 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 1006007012315 ThiS interaction site; other site 1006007012316 putative active site [active] 1006007012317 tetramer interface [polypeptide binding]; other site 1006007012318 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1006007012319 thiS-thiF/thiG interaction site; other site 1006007012320 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1006007012321 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1006007012322 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 1006007012323 thiamine phosphate binding site [chemical binding]; other site 1006007012324 active site 1006007012325 pyrophosphate binding site [ion binding]; other site 1006007012326 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1006007012327 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1006007012328 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 1006007012329 substrate binding pocket [chemical binding]; other site 1006007012330 membrane-bound complex binding site; other site 1006007012331 hinge residues; other site 1006007012332 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 1006007012333 active site 1006007012334 dimerization interface [polypeptide binding]; other site 1006007012335 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 1006007012336 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1006007012337 putative NADP binding site [chemical binding]; other site 1006007012338 putative dimer interface [polypeptide binding]; other site 1006007012339 Predicted transcriptional regulator [Transcription]; Region: COG1959 1006007012340 Transcriptional regulator; Region: Rrf2; pfam02082 1006007012341 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1006007012342 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1006007012343 SpoVR like protein; Region: SpoVR; pfam04293 1006007012344 YhdB-like protein; Region: YhdB; pfam14148 1006007012345 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1006007012346 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1006007012347 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1006007012348 active site 1006007012349 substrate binding site [chemical binding]; other site 1006007012350 metal binding site [ion binding]; metal-binding site 1006007012351 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1006007012352 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1006007012353 glycerol kinase; Provisional; Region: glpK; PRK00047 1006007012354 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1006007012355 N- and C-terminal domain interface [polypeptide binding]; other site 1006007012356 active site 1006007012357 MgATP binding site [chemical binding]; other site 1006007012358 catalytic site [active] 1006007012359 metal binding site [ion binding]; metal-binding site 1006007012360 glycerol binding site [chemical binding]; other site 1006007012361 homotetramer interface [polypeptide binding]; other site 1006007012362 homodimer interface [polypeptide binding]; other site 1006007012363 FBP binding site [chemical binding]; other site 1006007012364 protein IIAGlc interface [polypeptide binding]; other site 1006007012365 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1006007012366 amphipathic channel; other site 1006007012367 Asn-Pro-Ala signature motifs; other site 1006007012368 potential frameshift: common BLAST hit: gi|294497320|ref|YP_003561020.1| glycerol uptake operon antiterminator regulatory protein 1006007012369 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 1006007012370 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 1006007012371 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007012372 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007012373 Coenzyme A binding pocket [chemical binding]; other site 1006007012374 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1006007012375 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 1006007012376 putative active site [active] 1006007012377 catalytic triad [active] 1006007012378 putative dimer interface [polypeptide binding]; other site 1006007012379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1006007012380 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1006007012381 SurA N-terminal domain; Region: SurA_N_3; cl07813 1006007012382 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1006007012383 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1006007012384 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1006007012385 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1006007012386 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1006007012387 active site 1006007012388 Cache domain; Region: Cache_1; pfam02743 1006007012389 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 1006007012390 dimerization interface [polypeptide binding]; other site 1006007012391 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1006007012392 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1006007012393 dimer interface [polypeptide binding]; other site 1006007012394 putative CheW interface [polypeptide binding]; other site 1006007012395 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1006007012396 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1006007012397 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1006007012398 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1006007012399 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1006007012400 NAD binding site [chemical binding]; other site 1006007012401 dimer interface [polypeptide binding]; other site 1006007012402 substrate binding site [chemical binding]; other site 1006007012403 L-lactate permease; Region: Lactate_perm; cl00701 1006007012404 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1006007012405 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1006007012406 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1006007012407 NAD(P) binding site [chemical binding]; other site 1006007012408 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1006007012409 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1006007012410 SET domain; Region: SET; pfam00856 1006007012411 EamA-like transporter family; Region: EamA; cl17759 1006007012412 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1006007012413 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1006007012414 active site 1006007012415 Uncharacterized protein from bacillus cereus group; Region: YfmQ; pfam10787 1006007012416 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1006007012417 Citrate transporter; Region: CitMHS; pfam03600 1006007012418 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1006007012419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007012420 Coenzyme A binding pocket [chemical binding]; other site 1006007012421 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1006007012422 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_3; cd08490 1006007012423 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 1006007012424 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 1006007012425 nucleotide binding site [chemical binding]; other site 1006007012426 SulA interaction site; other site 1006007012427 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1006007012428 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 1006007012429 TIGR01177 family protein; Region: TIGR01177 1006007012430 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 1006007012431 S-adenosylmethionine binding site [chemical binding]; other site 1006007012432 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1006007012433 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 1006007012434 RNA binding surface [nucleotide binding]; other site 1006007012435 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1006007012436 probable active site [active] 1006007012437 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1006007012438 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 1006007012439 QueT transporter; Region: QueT; pfam06177 1006007012440 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1006007012441 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1006007012442 putative DNA binding site [nucleotide binding]; other site 1006007012443 putative Zn2+ binding site [ion binding]; other site 1006007012444 AsnC family; Region: AsnC_trans_reg; pfam01037 1006007012445 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007012446 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007012447 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007012448 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007012449 KduI/IolB family; Region: KduI; pfam04962 1006007012450 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007012451 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007012452 DNA binding site [nucleotide binding] 1006007012453 domain linker motif; other site 1006007012454 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 1006007012455 dimerization interface [polypeptide binding]; other site 1006007012456 ligand binding site [chemical binding]; other site 1006007012457 potential frameshift: common BLAST hit: gi|295702656|ref|YP_003595731.1| inosose dehydratase 1006007012458 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1006007012459 potential frameshift: common BLAST hit: gi|295702656|ref|YP_003595731.1| inosose dehydratase 1006007012460 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1006007012461 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1006007012462 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1006007012463 PYR/PP interface [polypeptide binding]; other site 1006007012464 dimer interface [polypeptide binding]; other site 1006007012465 TPP binding site [chemical binding]; other site 1006007012466 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1006007012467 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 1006007012468 TPP-binding site; other site 1006007012469 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1006007012470 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1006007012471 tetrameric interface [polypeptide binding]; other site 1006007012472 NAD binding site [chemical binding]; other site 1006007012473 catalytic residues [active] 1006007012474 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1006007012475 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1006007012476 polyol permease family; Region: 2A0118; TIGR00897 1006007012477 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 1006007012478 putative substrate translocation pore; other site 1006007012479 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1006007012480 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1006007012481 DNA binding site [nucleotide binding] 1006007012482 domain linker motif; other site 1006007012483 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 1006007012484 dimerization interface [polypeptide binding]; other site 1006007012485 ligand binding site [chemical binding]; other site 1006007012486 Predicted peptidase [General function prediction only]; Region: COG4099 1006007012487 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1006007012488 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1006007012489 Heat induced stress protein YflT; Region: YflT; pfam11181 1006007012490 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1006007012491 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1006007012492 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1006007012493 putative active site [active] 1006007012494 catalytic site [active] 1006007012495 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1006007012496 putative active site [active] 1006007012497 catalytic site [active] 1006007012498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007012499 Coenzyme A binding pocket [chemical binding]; other site 1006007012500 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1006007012501 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1006007012502 Coenzyme A binding pocket [chemical binding]; other site 1006007012503 Bacterial SH3 domain; Region: SH3_3; pfam08239 1006007012504 Bacterial SH3 domain; Region: SH3_3; pfam08239 1006007012505 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1006007012506 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1006007012507 potential frameshift: common BLAST hit: gi|295702639|ref|YP_003595714.1| putative exported cell wall-binding protein 1006007012508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 1006007012509 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007012510 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007012511 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 1006007012512 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1006007012513 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 1006007012514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007012515 Coenzyme A binding pocket [chemical binding]; other site 1006007012516 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1006007012517 NlpC/P60 family; Region: NLPC_P60; pfam00877 1006007012518 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1006007012519 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 1006007012520 active site 1006007012521 Predicted integral membrane protein [Function unknown]; Region: COG5505 1006007012522 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 1006007012523 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1006007012524 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 1006007012525 active site 1006007012526 catalytic site [active] 1006007012527 metal binding site [ion binding]; metal-binding site 1006007012528 dimer interface [polypeptide binding]; other site 1006007012529 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1006007012530 hypothetical protein; Provisional; Region: PRK11622 1006007012531 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1006007012532 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1006007012533 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 1006007012534 dimer interface [polypeptide binding]; other site 1006007012535 conserved gate region; other site 1006007012536 putative PBP binding loops; other site 1006007012537 ABC-ATPase subunit interface; other site 1006007012538 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 1006007012539 putative PBP binding loops; other site 1006007012540 dimer interface [polypeptide binding]; other site 1006007012541 ABC-ATPase subunit interface; other site 1006007012542 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1006007012543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007012544 Walker A/P-loop; other site 1006007012545 ATP binding site [chemical binding]; other site 1006007012546 Q-loop/lid; other site 1006007012547 ABC transporter signature motif; other site 1006007012548 Walker B; other site 1006007012549 D-loop; other site 1006007012550 H-loop/switch region; other site 1006007012551 TOBE domain; Region: TOBE_2; pfam08402 1006007012552 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 1006007012553 biotin synthase; Validated; Region: PRK06256 1006007012554 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 1006007012555 FeS/SAM binding site; other site 1006007012556 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1006007012557 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1006007012558 Melibiase; Region: Melibiase; pfam02065 1006007012559 amino acid transporter; Region: 2A0306; TIGR00909 1006007012560 EcsC protein family; Region: EcsC; pfam12787 1006007012561 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1006007012562 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1006007012563 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1006007012564 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1006007012565 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1006007012566 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1006007012567 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1006007012568 ThiC-associated domain; Region: ThiC-associated; pfam13667 1006007012569 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1006007012570 VanZ like family; Region: VanZ; pfam04892 1006007012571 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1006007012572 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1006007012573 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007012574 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 1006007012575 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 1006007012576 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 1006007012577 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1006007012578 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1006007012579 Putative amidase domain; Region: Amidase_6; pfam12671 1006007012580 epoxyqueuosine reductase; Region: TIGR00276 1006007012581 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1006007012582 PBS lyase HEAT-like repeat; Region: HEAT_PBS; pfam03130 1006007012583 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1006007012584 B3/4 domain; Region: B3_4; pfam03483 1006007012585 Protein of unknown function (DUF2614); Region: DUF2614; pfam11023 1006007012586 ferric uptake regulator; Provisional; Region: fur; PRK09462 1006007012587 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1006007012588 metal binding site 2 [ion binding]; metal-binding site 1006007012589 putative DNA binding helix; other site 1006007012590 metal binding site 1 [ion binding]; metal-binding site 1006007012591 dimer interface [polypeptide binding]; other site 1006007012592 structural Zn2+ binding site [ion binding]; other site 1006007012593 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1006007012594 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 1006007012595 catalytic triad [active] 1006007012596 Ion channel; Region: Ion_trans_2; pfam07885 1006007012597 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1006007012598 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1006007012599 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1006007012600 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1006007012601 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007012602 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1006007012603 Walker A/P-loop; other site 1006007012604 ATP binding site [chemical binding]; other site 1006007012605 Q-loop/lid; other site 1006007012606 ABC transporter signature motif; other site 1006007012607 Walker B; other site 1006007012608 D-loop; other site 1006007012609 H-loop/switch region; other site 1006007012610 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 1006007012611 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 1006007012612 inhibitor-cofactor binding pocket; inhibition site 1006007012613 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007012614 catalytic residue [active] 1006007012615 Predicted membrane protein [Function unknown]; Region: COG4129 1006007012616 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1006007012617 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1006007012618 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1006007012619 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1006007012620 Walker A/P-loop; other site 1006007012621 ATP binding site [chemical binding]; other site 1006007012622 Q-loop/lid; other site 1006007012623 ABC transporter signature motif; other site 1006007012624 Walker B; other site 1006007012625 D-loop; other site 1006007012626 H-loop/switch region; other site 1006007012627 hypothetical protein; Provisional; Region: PRK13662 1006007012628 YgaB-like protein; Region: YgaB; pfam14182 1006007012629 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 1006007012630 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 1006007012631 putative NAD(P) binding site [chemical binding]; other site 1006007012632 active site 1006007012633 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1006007012634 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1006007012635 minor groove reading motif; other site 1006007012636 helix-hairpin-helix signature motif; other site 1006007012637 substrate binding pocket [chemical binding]; other site 1006007012638 active site 1006007012639 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1006007012640 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 1006007012641 DNA binding and oxoG recognition site [nucleotide binding] 1006007012642 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 1006007012643 WVELL protein; Region: WVELL; pfam14043 1006007012644 acid-soluble spore protein K; Provisional; Region: sspK; PRK03081 1006007012645 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 1006007012646 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 1006007012647 short chain dehydrogenase; Provisional; Region: PRK06924 1006007012648 putative NAD(P) binding site [chemical binding]; other site 1006007012649 homotetramer interface [polypeptide binding]; other site 1006007012650 active site 1006007012651 recombination regulator RecX; Provisional; Region: recX; PRK14135 1006007012652 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1006007012653 TIGR01777 family protein; Region: yfcH 1006007012654 putative NAD(P) binding site [chemical binding]; other site 1006007012655 putative active site [active] 1006007012656 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1006007012657 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 1006007012658 active site 1006007012659 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1006007012660 YfhE-like protein; Region: YfhE; pfam14152 1006007012661 potential frameshift: common BLAST hit: gi|294497206|ref|YP_003560906.1| two-component sensor histidine kinase 1006007012662 PAS domain; Region: PAS_9; pfam13426 1006007012663 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1006007012664 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 1006007012665 dimer interface [polypeptide binding]; other site 1006007012666 phosphorylation site [posttranslational modification] 1006007012667 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 1006007012668 ATP binding site [chemical binding]; other site 1006007012669 Mg2+ binding site [ion binding]; other site 1006007012670 G-X-G motif; other site 1006007012671 Cache domain; Region: Cache_1; pfam02743 1006007012672 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 1006007012673 dimerization interface [polypeptide binding]; other site 1006007012674 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1006007012675 TRAM domain; Region: TRAM; pfam01938 1006007012676 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 1006007012677 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 1006007012678 S-adenosylmethionine binding site [chemical binding]; other site 1006007012679 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 1006007012680 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 1006007012681 NodB motif; other site 1006007012682 active site 1006007012683 catalytic site [active] 1006007012684 Cd binding site [ion binding]; other site 1006007012685 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1006007012686 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1006007012687 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1006007012688 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 1006007012689 FeS/SAM binding site; other site 1006007012690 YfkB-like domain; Region: YfkB; pfam08756 1006007012691 YfkD-like protein; Region: YfkD; pfam14167 1006007012692 calcium/proton exchanger (cax); Region: cax; TIGR00378 1006007012693 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1006007012694 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1006007012695 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1006007012696 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1006007012697 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 1006007012698 hypothetical protein; Provisional; Region: PRK00872 1006007012699 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 1006007012700 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1006007012701 putative substrate translocation pore; other site 1006007012702 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1006007012703 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1006007012704 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 1006007012705 dimerization interface [polypeptide binding]; other site 1006007012706 putative DNA binding site [nucleotide binding]; other site 1006007012707 putative Zn2+ binding site [ion binding]; other site 1006007012708 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1006007012709 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1006007012710 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1006007012711 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1006007012712 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1006007012713 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1006007012714 active site 1006007012715 Protein of unknown function (DUF1128); Region: DUF1128; pfam06569 1006007012716 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1006007012717 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 1006007012718 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1006007012719 active site 1006007012720 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1006007012721 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1006007012722 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1006007012723 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1006007012724 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1006007012725 proposed catalytic triad [active] 1006007012726 conserved cys residue [active] 1006007012727 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1006007012728 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1006007012729 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1006007012730 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 1006007012731 heme-binding site [chemical binding]; other site 1006007012732 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 1006007012733 FAD binding pocket [chemical binding]; other site 1006007012734 FAD binding motif [chemical binding]; other site 1006007012735 phosphate binding motif [ion binding]; other site 1006007012736 beta-alpha-beta structure motif; other site 1006007012737 NAD binding pocket [chemical binding]; other site 1006007012738 Heme binding pocket [chemical binding]; other site 1006007012739 Predicted transcriptional regulator [Transcription]; Region: COG1959 1006007012740 Transcriptional regulator; Region: Rrf2; cl17282 1006007012741 Protein of unknown function (DUF2639); Region: DUF2639; pfam11121 1006007012742 Nitric oxide synthase (NOS) produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N(omega)-hydroxy-L-arginine (NHA) as an...; Region: NOS_oxygenase; cd00575 1006007012743 active site 1006007012744 dimer interface [polypeptide binding]; other site 1006007012745 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1006007012746 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1006007012747 NAD binding site [chemical binding]; other site 1006007012748 ligand binding site [chemical binding]; other site 1006007012749 catalytic site [active] 1006007012750 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1006007012751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007012752 Walker A/P-loop; other site 1006007012753 ATP binding site [chemical binding]; other site 1006007012754 Q-loop/lid; other site 1006007012755 ABC transporter signature motif; other site 1006007012756 Walker B; other site 1006007012757 D-loop; other site 1006007012758 H-loop/switch region; other site 1006007012759 ABC transporter; Region: ABC_tran_2; pfam12848 1006007012760 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007012761 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1006007012762 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1006007012763 Glycosyl hydrolase family 14; Region: Glyco_hydro_14; pfam01373 1006007012764 Beta-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Beta-amylase has, in addition to its C-terminal CBM20 domain, an N-terminal catalytic domain belonging to glycosyl hydrolase family 14, which hydrolyzes the alpha-1; Region: CBM20_beta_amylase; cd05809 1006007012765 starch-binding site 2 [chemical binding]; other site 1006007012766 starch-binding site 1 [chemical binding]; other site 1006007012767 Endonuclease I; Region: Endonuclease_1; pfam04231 1006007012768 WXG100 protein secretion system (Wss), protein EssA; Region: EssA; cl11266 1006007012769 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 1006007012770 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1006007012771 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1006007012772 Predicted membrane protein [Function unknown]; Region: COG1511 1006007012773 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 1006007012774 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 1006007012775 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1006007012776 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1006007012777 type VII secretion protein EssB; Region: T7_EssB; TIGR03926 1006007012778 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 1006007012779 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; cl17489 1006007012780 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 1006007012781 SseB protein; Region: SseB; cl06279 1006007012782 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 1006007012783 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 1006007012784 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1006007012785 ATP binding site [chemical binding]; other site 1006007012786 putative Mg++ binding site [ion binding]; other site 1006007012787 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 1006007012788 nucleotide binding region [chemical binding]; other site 1006007012789 ATP-binding site [chemical binding]; other site 1006007012790 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1006007012791 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 1006007012792 putative active site [active] 1006007012793 heme pocket [chemical binding]; other site 1006007012794 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 1006007012795 dimer interface [polypeptide binding]; other site 1006007012796 phosphorylation site [posttranslational modification] 1006007012797 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 1006007012798 ATP binding site [chemical binding]; other site 1006007012799 Mg2+ binding site [ion binding]; other site 1006007012800 G-X-G motif; other site 1006007012801 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007012802 B12 binding domain; Region: B12-binding_2; pfam02607 1006007012803 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cd02065 1006007012804 B12 binding site [chemical binding]; other site 1006007012805 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1006007012806 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 1006007012807 active site 1006007012808 phosphorylation site [posttranslational modification] 1006007012809 intermolecular recognition site; other site 1006007012810 dimerization interface [polypeptide binding]; other site 1006007012811 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated...; Region: H15; cl00073 1006007012812 DNA-binding site [nucleotide binding]; DNA binding site 1006007012813 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1006007012814 PAS domain; Region: PAS; smart00091 1006007012815 putative active site [active] 1006007012816 heme pocket [chemical binding]; other site 1006007012817 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 1006007012818 ATP binding site [chemical binding]; other site 1006007012819 Mg2+ binding site [ion binding]; other site 1006007012820 G-X-G motif; other site 1006007012821 Uncharacterized bacterial subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u2; cd12831 1006007012822 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1006007012823 oligomer interface [polypeptide binding]; other site 1006007012824 metal binding site [ion binding]; metal-binding site 1006007012825 metal binding site [ion binding]; metal-binding site 1006007012826 putative Cl binding site [ion binding]; other site 1006007012827 aspartate ring; other site 1006007012828 basic sphincter; other site 1006007012829 hydrophobic gate; other site 1006007012830 periplasmic entrance; other site 1006007012831 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1006007012832 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1006007012833 dinuclear metal binding motif [ion binding]; other site 1006007012834 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 1006007012835 amidohydrolase; Region: amidohydrolases; TIGR01891 1006007012836 metal binding site [ion binding]; metal-binding site 1006007012837 Predicted membrane protein [Function unknown]; Region: COG4129 1006007012838 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1006007012839 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1006007012840 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1006007012841 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 1006007012842 active site flap/lid [active] 1006007012843 nucleophilic elbow; other site 1006007012844 catalytic triad [active] 1006007012845 DinB family; Region: DinB; cl17821 1006007012846 DinB superfamily; Region: DinB_2; pfam12867 1006007012847 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1006007012848 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1006007012849 proposed catalytic triad [active] 1006007012850 conserved cys residue [active] 1006007012851 Predicted membrane protein [Function unknown]; Region: COG2259 1006007012852 glutamate carboxypeptidase; Reviewed; Region: PRK06133 1006007012853 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1006007012854 metal binding site [ion binding]; metal-binding site 1006007012855 dimer interface [polypeptide binding]; other site 1006007012856 High-affinity nickel-transport protein; Region: NicO; cl00964 1006007012857 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1006007012858 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 1006007012859 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1006007012860 active site 1006007012861 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1006007012862 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1006007012863 Walker A/P-loop; other site 1006007012864 ATP binding site [chemical binding]; other site 1006007012865 Q-loop/lid; other site 1006007012866 ABC transporter signature motif; other site 1006007012867 Walker B; other site 1006007012868 D-loop; other site 1006007012869 H-loop/switch region; other site 1006007012870 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1006007012871 Predicted membrane protein [Function unknown]; Region: COG2311 1006007012872 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1006007012873 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007012874 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 1006007012875 active site 1006007012876 phosphorylation site [posttranslational modification] 1006007012877 intermolecular recognition site; other site 1006007012878 dimerization interface [polypeptide binding]; other site 1006007012879 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 1006007012880 DNA binding site [nucleotide binding] 1006007012881 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007012882 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 1006007012883 dimer interface [polypeptide binding]; other site 1006007012884 phosphorylation site [posttranslational modification] 1006007012885 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 1006007012886 ATP binding site [chemical binding]; other site 1006007012887 Mg2+ binding site [ion binding]; other site 1006007012888 G-X-G motif; other site 1006007012889 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1006007012890 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 1006007012891 active site 1006007012892 phosphorylation site [posttranslational modification] 1006007012893 intermolecular recognition site; other site 1006007012894 dimerization interface [polypeptide binding]; other site 1006007012895 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 1006007012896 DNA binding site [nucleotide binding] 1006007012897 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007012898 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 1006007012899 dimerization interface [polypeptide binding]; other site 1006007012900 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 1006007012901 dimer interface [polypeptide binding]; other site 1006007012902 phosphorylation site [posttranslational modification] 1006007012903 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 1006007012904 ATP binding site [chemical binding]; other site 1006007012905 Mg2+ binding site [ion binding]; other site 1006007012906 G-X-G motif; other site 1006007012907 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1006007012908 Predicted membrane protein [Function unknown]; Region: COG3212 1006007012909 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1006007012910 Predicted membrane protein [Function unknown]; Region: COG3212 1006007012911 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1006007012912 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1006007012913 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1006007012914 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1006007012915 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1006007012916 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 1006007012917 dimer interface [polypeptide binding]; other site 1006007012918 conserved gate region; other site 1006007012919 putative PBP binding loops; other site 1006007012920 ABC-ATPase subunit interface; other site 1006007012921 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1006007012922 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 1006007012923 dimer interface [polypeptide binding]; other site 1006007012924 conserved gate region; other site 1006007012925 putative PBP binding loops; other site 1006007012926 ABC-ATPase subunit interface; other site 1006007012927 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1006007012928 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007012929 Walker A/P-loop; other site 1006007012930 ATP binding site [chemical binding]; other site 1006007012931 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1006007012932 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 1006007012933 putative substrate translocation pore; other site 1006007012934 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1006007012935 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1006007012936 DNA binding residues [nucleotide binding] 1006007012937 drug binding residues [chemical binding]; other site 1006007012938 dimer interface [polypeptide binding]; other site 1006007012939 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1006007012940 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1006007012941 Nitronate monooxygenase; Region: NMO; pfam03060 1006007012942 FMN binding site [chemical binding]; other site 1006007012943 substrate binding site [chemical binding]; other site 1006007012944 putative catalytic residue [active] 1006007012945 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1006007012946 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 1006007012947 active site 1006007012948 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 1006007012949 dimerization interface [polypeptide binding]; other site 1006007012950 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1006007012951 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 1006007012952 dimer interface [polypeptide binding]; other site 1006007012953 phosphorylation site [posttranslational modification] 1006007012954 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 1006007012955 ATP binding site [chemical binding]; other site 1006007012956 Mg2+ binding site [ion binding]; other site 1006007012957 G-X-G motif; other site 1006007012958 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1006007012959 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1006007012960 DNA binding domain, excisionase family; Region: excise; TIGR01764 1006007012961 Dynamin family; Region: Dynamin_N; pfam00350 1006007012962 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007012963 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1006007012964 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1006007012965 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1006007012966 TRAM domain; Region: TRAM; pfam01938 1006007012967 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 1006007012968 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 1006007012969 S-adenosylmethionine binding site [chemical binding]; other site 1006007012970 putative lipid kinase; Reviewed; Region: PRK13337 1006007012971 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1006007012972 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1006007012973 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1006007012974 GatB domain; Region: GatB_Yqey; pfam02637 1006007012975 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1006007012976 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1006007012977 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1006007012978 Protein of unknown function (DUF3920); Region: DUF3920; pfam13058 1006007012979 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 1006007012980 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 1006007012981 putative dimer interface [polypeptide binding]; other site 1006007012982 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 1006007012983 putative dimer interface [polypeptide binding]; other site 1006007012984 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1006007012985 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 1006007012986 nucleotide binding pocket [chemical binding]; other site 1006007012987 K-X-D-G motif; other site 1006007012988 catalytic site [active] 1006007012989 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1006007012990 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1006007012991 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 1006007012992 Dimer interface [polypeptide binding]; other site 1006007012993 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1006007012994 Part of AAA domain; Region: AAA_19; pfam13245 1006007012995 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1006007012996 Family description; Region: UvrD_C_2; pfam13538 1006007012997 PcrB family; Region: PcrB; pfam01884 1006007012998 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 1006007012999 substrate binding site [chemical binding]; other site 1006007013000 putative active site [active] 1006007013001 dimer interface [polypeptide binding]; other site 1006007013002 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1006007013003 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 1006007013004 motif 1; other site 1006007013005 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1006007013006 active site 1006007013007 motif 2; other site 1006007013008 motif 3; other site 1006007013009 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 1006007013010 anticodon binding site; other site 1006007013011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4496 1006007013012 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1006007013013 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 1006007013014 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 1006007013015 active site 1006007013016 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1006007013017 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1006007013018 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1006007013019 active site 1006007013020 substrate binding site [chemical binding]; other site 1006007013021 cosubstrate binding site; other site 1006007013022 catalytic site [active] 1006007013023 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1006007013024 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 1006007013025 dimerization interface [polypeptide binding]; other site 1006007013026 putative ATP binding site [chemical binding]; other site 1006007013027 amidophosphoribosyltransferase; Provisional; Region: PRK07631 1006007013028 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 1006007013029 active site 1006007013030 tetramer interface [polypeptide binding]; other site 1006007013031 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1006007013032 active site 1006007013033 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1006007013034 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 1006007013035 dimerization interface [polypeptide binding]; other site 1006007013036 ATP binding site [chemical binding]; other site 1006007013037 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1006007013038 dimerization interface [polypeptide binding]; other site 1006007013039 ATP binding site [chemical binding]; other site 1006007013040 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1006007013041 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1006007013042 putative active site [active] 1006007013043 catalytic triad [active] 1006007013044 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1006007013045 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1006007013046 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1006007013047 ATP binding site [chemical binding]; other site 1006007013048 active site 1006007013049 substrate binding site [chemical binding]; other site 1006007013050 adenylosuccinate lyase; Provisional; Region: PRK07492 1006007013051 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1006007013052 tetramer interface [polypeptide binding]; other site 1006007013053 active site 1006007013054 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1006007013055 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1006007013056 NAD binding site [chemical binding]; other site 1006007013057 ATP-grasp domain; Region: ATP-grasp; pfam02222 1006007013058 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1006007013059 NETI protein; Region: NETI; pfam14044 1006007013060 SigmaK-factor processing regulatory protein BofA; Region: BofA; pfam07441 1006007013061 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 1006007013062 recombination protein RecR; Reviewed; Region: recR; PRK00076 1006007013063 RecR protein; Region: RecR; pfam02132 1006007013064 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 1006007013065 putative active site [active] 1006007013066 putative metal-binding site [ion binding]; other site 1006007013067 tetramer interface [polypeptide binding]; other site 1006007013068 hypothetical protein; Validated; Region: PRK00153 1006007013069 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1006007013070 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 1006007013071 Walker A motif; other site 1006007013072 ATP binding site [chemical binding]; other site 1006007013073 Walker B motif; other site 1006007013074 arginine finger; other site 1006007013075 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1006007013076 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1006007013077 nucleoside/Zn binding site; other site 1006007013078 dimer interface [polypeptide binding]; other site 1006007013079 catalytic motif [active] 1006007013080 Isochorismatase family; Region: Isochorismatase; pfam00857 1006007013081 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 1006007013082 catalytic triad [active] 1006007013083 conserved cis-peptide bond; other site 1006007013084 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 1006007013085 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007013086 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1006007013087 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 1006007013088 active site 1006007013089 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1006007013090 AAA domain; Region: AAA_18; pfam13238 1006007013091 Substrate-binding site [chemical binding]; other site 1006007013092 Substrate specificity [chemical binding]; other site 1006007013093 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1006007013094 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1006007013095 Substrate-binding site [chemical binding]; other site 1006007013096 Substrate specificity [chemical binding]; other site 1006007013097 seryl-tRNA synthetase; Provisional; Region: PRK05431 1006007013098 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1006007013099 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 1006007013100 dimer interface [polypeptide binding]; other site 1006007013101 active site 1006007013102 motif 1; other site 1006007013103 motif 2; other site 1006007013104 motif 3; other site 1006007013105 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1006007013106 predicted active site [active] 1006007013107 catalytic triad [active] 1006007013108 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1006007013109 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1006007013110 active site 1006007013111 multimer interface [polypeptide binding]; other site 1006007013112 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1006007013113 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1006007013114 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1006007013115 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1006007013116 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 1006007013117 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 1006007013118 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 1006007013119 active site 1006007013120 YaaC-like Protein; Region: YaaC; pfam14175 1006007013121 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1006007013122 GMP synthase; Reviewed; Region: guaA; PRK00074 1006007013123 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1006007013124 AMP/PPi binding site [chemical binding]; other site 1006007013125 candidate oxyanion hole; other site 1006007013126 catalytic triad [active] 1006007013127 potential glutamine specificity residues [chemical binding]; other site 1006007013128 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 1006007013129 ATP Binding subdomain [chemical binding]; other site 1006007013130 Ligand Binding sites [chemical binding]; other site 1006007013131 Dimerization subdomain; other site 1006007013132 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1006007013133 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1006007013134 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1006007013135 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1006007013136 Protein of unknown function DUF58; Region: DUF58; pfam01882 1006007013137 MoxR-like ATPases [General function prediction only]; Region: COG0714 1006007013138 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 1006007013139 Walker A motif; other site 1006007013140 ATP binding site [chemical binding]; other site 1006007013141 Walker B motif; other site 1006007013142 arginine finger; other site 1006007013143 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1006007013144 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 1006007013145 ring oligomerisation interface [polypeptide binding]; other site 1006007013146 ATP/Mg binding site [chemical binding]; other site 1006007013147 stacking interactions; other site 1006007013148 hinge regions; other site 1006007013149 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 1006007013150 oligomerisation interface [polypeptide binding]; other site 1006007013151 mobile loop; other site 1006007013152 roof hairpin; other site 1006007013153 CAAX protease self-immunity; Region: Abi; pfam02517 1006007013154 Domain of unknown function (DUF4305); Region: DUF4305; pfam14146 1006007013155 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1006007013156 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 1006007013157 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1006007013158 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1006007013159 CoA binding domain; Region: CoA_binding; pfam02629 1006007013160 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1006007013161 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007013162 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007013163 ABC transporter; Region: ABC_tran_2; pfam12848 1006007013164 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1006007013165 UGMP family protein; Validated; Region: PRK09604 1006007013166 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1006007013167 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1006007013168 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1006007013169 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1006007013170 Coenzyme A binding pocket [chemical binding]; other site 1006007013171 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1006007013172 Glycoprotease family; Region: Peptidase_M22; pfam00814 1006007013173 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1006007013174 SprT homologues; Region: SprT; cl01182 1006007013175 hypothetical protein; Provisional; Region: PRK04351 1006007013176 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1006007013177 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1006007013178 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1006007013179 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 1006007013180 RNA binding site [nucleotide binding]; other site 1006007013181 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 1006007013182 active site 1006007013183 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 1006007013184 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007013185 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1006007013186 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 1006007013187 DNA binding residues [nucleotide binding] 1006007013188 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1006007013189 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 1006007013190 ATP binding site [chemical binding]; other site 1006007013191 Mg2+ binding site [ion binding]; other site 1006007013192 G-X-G motif; other site 1006007013193 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 1006007013194 anti sigma factor interaction site; other site 1006007013195 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1006007013196 regulatory phosphorylation site [posttranslational modification]; other site 1006007013197 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1006007013198 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 1006007013199 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1006007013200 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1006007013201 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 1006007013202 ATP binding site [chemical binding]; other site 1006007013203 Mg2+ binding site [ion binding]; other site 1006007013204 G-X-G motif; other site 1006007013205 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007013206 Rsbr N terminal; Region: Rsbr_N; pfam08678 1006007013207 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1006007013208 PemK-like protein; Region: PemK; pfam02452 1006007013209 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 1006007013210 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1006007013211 alanine racemase; Reviewed; Region: alr; PRK00053 1006007013212 active site 1006007013213 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1006007013214 dimer interface [polypeptide binding]; other site 1006007013215 substrate binding site [chemical binding]; other site 1006007013216 catalytic residues [active] 1006007013217 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1006007013218 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1006007013219 Rhomboid family; Region: Rhomboid; pfam01694 1006007013220 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 1006007013221 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 1006007013222 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1006007013223 ATP binding site [chemical binding]; other site 1006007013224 Mg++ binding site [ion binding]; other site 1006007013225 motif III; other site 1006007013226 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 1006007013227 nucleotide binding region [chemical binding]; other site 1006007013228 ATP-binding site [chemical binding]; other site 1006007013229 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1006007013230 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1006007013231 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1006007013232 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1006007013233 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1006007013234 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1006007013235 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1006007013236 FMN-binding domain; Region: FMN_bind; cl01081 1006007013237 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1006007013238 ApbE family; Region: ApbE; pfam02424 1006007013239 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1006007013240 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1006007013241 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 1006007013242 dimer interface [polypeptide binding]; other site 1006007013243 phosphorylation site [posttranslational modification] 1006007013244 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 1006007013245 ATP binding site [chemical binding]; other site 1006007013246 Mg2+ binding site [ion binding]; other site 1006007013247 G-X-G motif; other site 1006007013248 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1006007013249 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 1006007013250 active site 1006007013251 phosphorylation site [posttranslational modification] 1006007013252 intermolecular recognition site; other site 1006007013253 dimerization interface [polypeptide binding]; other site 1006007013254 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 1006007013255 DNA binding site [nucleotide binding] 1006007013256 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1006007013257 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 1006007013258 dimer interface [polypeptide binding]; other site 1006007013259 conserved gate region; other site 1006007013260 putative PBP binding loops; other site 1006007013261 ABC-ATPase subunit interface; other site 1006007013262 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1006007013263 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 1006007013264 dimer interface [polypeptide binding]; other site 1006007013265 conserved gate region; other site 1006007013266 putative PBP binding loops; other site 1006007013267 ABC-ATPase subunit interface; other site 1006007013268 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1006007013269 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1006007013270 Walker A/P-loop; other site 1006007013271 ATP binding site [chemical binding]; other site 1006007013272 Q-loop/lid; other site 1006007013273 ABC transporter signature motif; other site 1006007013274 Walker B; other site 1006007013275 D-loop; other site 1006007013276 H-loop/switch region; other site 1006007013277 TOBE domain; Region: TOBE_2; pfam08402 1006007013278 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1006007013279 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 1006007013280 non-specific DNA binding site [nucleotide binding]; other site 1006007013281 salt bridge; other site 1006007013282 sequence-specific DNA binding site [nucleotide binding]; other site 1006007013283 Cupin domain; Region: Cupin_2; pfam07883 1006007013284 Sulfatase; Region: Sulfatase; pfam00884 1006007013285 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13955 1006007013286 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1006007013287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1006007013288 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1006007013289 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1006007013290 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1006007013291 active site 1006007013292 metal binding site [ion binding]; metal-binding site 1006007013293 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1006007013294 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1006007013295 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1006007013296 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1006007013297 HTH domain; Region: HTH_11; pfam08279 1006007013298 PRD domain; Region: PRD; pfam00874 1006007013299 PRD domain; Region: PRD; pfam00874 1006007013300 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 1006007013301 active site 1006007013302 P-loop; other site 1006007013303 phosphorylation site [posttranslational modification] 1006007013304 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1006007013305 active site 1006007013306 phosphorylation site [posttranslational modification] 1006007013307 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1006007013308 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1006007013309 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 1006007013310 active site 1006007013311 P-loop; other site 1006007013312 phosphorylation site [posttranslational modification] 1006007013313 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 1006007013314 active site 1006007013315 phosphorylation site [posttranslational modification] 1006007013316 potential frameshift: common BLAST hit: gi|295702401|ref|YP_003595476.1| SH3 domain-containing protein 1006007013317 Bacterial SH3 domain; Region: SH3_3; pfam08239 1006007013318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1006007013319 Bacterial SH3 domain; Region: SH3_3; pfam08239 1006007013320 hypothetical protein; Provisional; Region: PRK12378 1006007013321 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1006007013322 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 1006007013323 glutaminase active site [active] 1006007013324 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 1006007013325 dimer interface [polypeptide binding]; other site 1006007013326 active site 1006007013327 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 1006007013328 dimer interface [polypeptide binding]; other site 1006007013329 active site 1006007013330 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1006007013331 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1006007013332 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1006007013333 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1006007013334 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 1006007013335 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007013336 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 1006007013337 DNA binding residues [nucleotide binding] 1006007013338 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 1006007013339 Arginase family; Region: Arginase; cd09989 1006007013340 agmatinase; Region: agmatinase; TIGR01230 1006007013341 active site 1006007013342 Mn binding site [ion binding]; other site 1006007013343 oligomer interface [polypeptide binding]; other site 1006007013344 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1006007013345 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1006007013346 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 1006007013347 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1006007013348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1006007013349 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 1006007013350 dimerization interface [polypeptide binding]; other site 1006007013351 antiporter inner membrane protein; Provisional; Region: PRK11670 1006007013352 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 1006007013353 Walker A motif; other site 1006007013354 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1006007013355 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 1006007013356 active site 1006007013357 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 1006007013358 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 1006007013359 PemK-like protein; Region: PemK; pfam02452 1006007013360 PemK-like protein; Region: PemK; pfam02452 1006007013361 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1006007013362 Predicted helicase [General function prediction only]; Region: COG4889 1006007013363 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 1006007013364 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 1006007013365 ATP binding site [chemical binding]; other site 1006007013366 putative Mg++ binding site [ion binding]; other site 1006007013367 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1006007013368 Homeodomain-like domain; Region: HTH_23; cl17451 1006007013369 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1006007013370 Helix-turn-helix domain; Region: HTH_17; cl17695 1006007013371 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 1006007013372 non-specific DNA binding site [nucleotide binding]; other site 1006007013373 salt bridge; other site 1006007013374 sequence-specific DNA binding site [nucleotide binding]; other site 1006007013375 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 1006007013376 sequence-specific DNA binding site [nucleotide binding]; other site 1006007013377 salt bridge; other site 1006007013378 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1006007013379 Int/Topo IB signature motif; other site 1006007013380 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1006007013381 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 1006007013382 23S rRNA interface [nucleotide binding]; other site 1006007013383 L3 interface [polypeptide binding]; other site 1006007013384 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1006007013385 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1006007013386 dimerization interface 3.5A [polypeptide binding]; other site 1006007013387 active site 1006007013388 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1006007013389 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 1006007013390 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1006007013391 Walker A/P-loop; other site 1006007013392 ATP binding site [chemical binding]; other site 1006007013393 Q-loop/lid; other site 1006007013394 ABC transporter signature motif; other site 1006007013395 Walker B; other site 1006007013396 D-loop; other site 1006007013397 H-loop/switch region; other site 1006007013398 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 1006007013399 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1006007013400 Walker A/P-loop; other site 1006007013401 ATP binding site [chemical binding]; other site 1006007013402 Q-loop/lid; other site 1006007013403 ABC transporter signature motif; other site 1006007013404 Walker B; other site 1006007013405 D-loop; other site 1006007013406 H-loop/switch region; other site 1006007013407 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1006007013408 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1006007013409 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1006007013410 alphaNTD homodimer interface [polypeptide binding]; other site 1006007013411 alphaNTD - beta interaction site [polypeptide binding]; other site 1006007013412 alphaNTD - beta' interaction site [polypeptide binding]; other site 1006007013413 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1006007013414 30S ribosomal protein S11; Validated; Region: PRK05309 1006007013415 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1006007013416 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1006007013417 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1006007013418 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 1006007013419 rRNA binding site [nucleotide binding]; other site 1006007013420 predicted 30S ribosome binding site; other site 1006007013421 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 1006007013422 active site 1006007013423 adenylate kinase; Reviewed; Region: adk; PRK00279 1006007013424 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 1006007013425 AMP-binding site [chemical binding]; other site 1006007013426 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1006007013427 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1006007013428 SecY translocase; Region: SecY; pfam00344 1006007013429 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1006007013430 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 1006007013431 23S rRNA binding site [nucleotide binding]; other site 1006007013432 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1006007013433 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1006007013434 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1006007013435 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 1006007013436 5S rRNA interface [nucleotide binding]; other site 1006007013437 23S rRNA interface [nucleotide binding]; other site 1006007013438 L5 interface [polypeptide binding]; other site 1006007013439 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1006007013440 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1006007013441 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1006007013442 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1006007013443 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1006007013444 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1006007013445 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1006007013446 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1006007013447 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1006007013448 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1006007013449 RNA binding site [nucleotide binding]; other site 1006007013450 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1006007013451 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1006007013452 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 1006007013453 23S rRNA interface [nucleotide binding]; other site 1006007013454 putative translocon interaction site; other site 1006007013455 signal recognition particle (SRP54) interaction site; other site 1006007013456 L23 interface [polypeptide binding]; other site 1006007013457 trigger factor interaction site; other site 1006007013458 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 1006007013459 23S rRNA interface [nucleotide binding]; other site 1006007013460 5S rRNA interface [nucleotide binding]; other site 1006007013461 putative antibiotic binding site [chemical binding]; other site 1006007013462 L25 interface [polypeptide binding]; other site 1006007013463 L27 interface [polypeptide binding]; other site 1006007013464 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1006007013465 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 1006007013466 G-X-X-G motif; other site 1006007013467 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1006007013468 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 1006007013469 putative translocon binding site; other site 1006007013470 protein-rRNA interface [nucleotide binding]; other site 1006007013471 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1006007013472 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1006007013473 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1006007013474 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1006007013475 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1006007013476 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1006007013477 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1006007013478 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1006007013479 elongation factor Tu; Reviewed; Region: PRK00049 1006007013480 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1006007013481 G1 box; other site 1006007013482 GEF interaction site [polypeptide binding]; other site 1006007013483 GTP/Mg2+ binding site [chemical binding]; other site 1006007013484 Switch I region; other site 1006007013485 G2 box; other site 1006007013486 G3 box; other site 1006007013487 Switch II region; other site 1006007013488 G4 box; other site 1006007013489 G5 box; other site 1006007013490 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 1006007013491 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 1006007013492 Antibiotic Binding Site [chemical binding]; other site 1006007013493 elongation factor G; Reviewed; Region: PRK00007 1006007013494 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1006007013495 G1 box; other site 1006007013496 putative GEF interaction site [polypeptide binding]; other site 1006007013497 GTP/Mg2+ binding site [chemical binding]; other site 1006007013498 Switch I region; other site 1006007013499 G2 box; other site 1006007013500 G3 box; other site 1006007013501 Switch II region; other site 1006007013502 G4 box; other site 1006007013503 G5 box; other site 1006007013504 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 1006007013505 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 1006007013506 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 1006007013507 30S ribosomal protein S7; Validated; Region: PRK05302 1006007013508 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 1006007013509 S17 interaction site [polypeptide binding]; other site 1006007013510 S8 interaction site; other site 1006007013511 16S rRNA interaction site [nucleotide binding]; other site 1006007013512 streptomycin interaction site [chemical binding]; other site 1006007013513 23S rRNA interaction site [nucleotide binding]; other site 1006007013514 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1006007013515 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 1006007013516 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1006007013517 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1006007013518 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1006007013519 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1006007013520 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1006007013521 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1006007013522 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1006007013523 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1006007013524 G-loop; other site 1006007013525 DNA binding site [nucleotide binding] 1006007013526 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 1006007013527 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1006007013528 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1006007013529 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 1006007013530 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 1006007013531 RPB10 interaction site [polypeptide binding]; other site 1006007013532 RPB1 interaction site [polypeptide binding]; other site 1006007013533 RPB11 interaction site [polypeptide binding]; other site 1006007013534 RPB3 interaction site [polypeptide binding]; other site 1006007013535 RPB12 interaction site [polypeptide binding]; other site 1006007013536 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1006007013537 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 1006007013538 S-adenosylmethionine binding site [chemical binding]; other site 1006007013539 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 1006007013540 peripheral dimer interface [polypeptide binding]; other site 1006007013541 core dimer interface [polypeptide binding]; other site 1006007013542 L10 interface [polypeptide binding]; other site 1006007013543 L11 interface [polypeptide binding]; other site 1006007013544 putative EF-Tu interaction site [polypeptide binding]; other site 1006007013545 putative EF-G interaction site [polypeptide binding]; other site 1006007013546 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 1006007013547 23S rRNA interface [nucleotide binding]; other site 1006007013548 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1006007013549 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 1006007013550 mRNA/rRNA interface [nucleotide binding]; other site 1006007013551 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1006007013552 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 1006007013553 putative thiostrepton binding site; other site 1006007013554 23S rRNA interface [nucleotide binding]; other site 1006007013555 L7/L12 interface [polypeptide binding]; other site 1006007013556 L25 interface [polypeptide binding]; other site 1006007013557 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1006007013558 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1006007013559 putative homodimer interface [polypeptide binding]; other site 1006007013560 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1006007013561 heterodimer interface [polypeptide binding]; other site 1006007013562 homodimer interface [polypeptide binding]; other site 1006007013563 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1006007013564 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1006007013565 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1006007013566 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1006007013567 Predicted RNA-binding protein containing a PIN domain [General function prediction only]; Region: COG3688 1006007013568 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1006007013569 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1006007013570 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1006007013571 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 1006007013572 active site 1006007013573 metal binding site [ion binding]; metal-binding site 1006007013574 dimerization interface [polypeptide binding]; other site 1006007013575 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1006007013576 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1006007013577 active site 1006007013578 HIGH motif; other site 1006007013579 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1006007013580 KMSKS motif; other site 1006007013581 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1006007013582 tRNA binding surface [nucleotide binding]; other site 1006007013583 anticodon binding site; other site 1006007013584 serine O-acetyltransferase; Region: cysE; TIGR01172 1006007013585 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1006007013586 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 1006007013587 trimer interface [polypeptide binding]; other site 1006007013588 active site 1006007013589 substrate binding site [chemical binding]; other site 1006007013590 CoA binding site [chemical binding]; other site 1006007013591 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1006007013592 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1006007013593 HIGH motif; other site 1006007013594 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1006007013595 active site 1006007013596 KMSKS motif; other site 1006007013597 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 1006007013598 homotrimer interaction site [polypeptide binding]; other site 1006007013599 zinc binding site [ion binding]; other site 1006007013600 CDP-binding sites; other site 1006007013601 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1006007013602 substrate binding site; other site 1006007013603 dimer interface; other site 1006007013604 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1006007013605 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1006007013606 putative active site [active] 1006007013607 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 1006007013608 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1006007013609 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 1006007013610 Helix-hairpin-helix motif; Region: HHH; pfam00633 1006007013611 DNA repair protein RadA; Provisional; Region: PRK11823 1006007013612 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 1006007013613 Walker A motif/ATP binding site; other site 1006007013614 ATP binding site [chemical binding]; other site 1006007013615 Walker B motif; other site 1006007013616 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1006007013617 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1006007013618 Clp amino terminal domain; Region: Clp_N; pfam02861 1006007013619 Clp amino terminal domain; Region: Clp_N; pfam02861 1006007013620 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 1006007013621 Walker A motif; other site 1006007013622 ATP binding site [chemical binding]; other site 1006007013623 Walker B motif; other site 1006007013624 arginine finger; other site 1006007013625 UvrB/uvrC motif; Region: UVR; pfam02151 1006007013626 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 1006007013627 Walker A motif; other site 1006007013628 ATP binding site [chemical binding]; other site 1006007013629 Walker B motif; other site 1006007013630 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1006007013631 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 1006007013632 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 1006007013633 ADP binding site [chemical binding]; other site 1006007013634 phosphagen binding site; other site 1006007013635 substrate specificity loop; other site 1006007013636 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1006007013637 UvrB/uvrC motif; Region: UVR; pfam02151 1006007013638 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1006007013639 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1006007013640 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 1006007013641 dimer interface [polypeptide binding]; other site 1006007013642 putative anticodon binding site; other site 1006007013643 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 1006007013644 motif 1; other site 1006007013645 active site 1006007013646 motif 2; other site 1006007013647 motif 3; other site 1006007013648 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 1006007013649 catalytic center binding site [active] 1006007013650 ATP binding site [chemical binding]; other site 1006007013651 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 1006007013652 homooctamer interface [polypeptide binding]; other site 1006007013653 active site 1006007013654 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1006007013655 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1006007013656 homodimer interface [polypeptide binding]; other site 1006007013657 substrate-cofactor binding pocket; other site 1006007013658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007013659 catalytic residue [active] 1006007013660 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1006007013661 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1006007013662 glutamine binding [chemical binding]; other site 1006007013663 catalytic triad [active] 1006007013664 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1006007013665 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1006007013666 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1006007013667 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1006007013668 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 1006007013669 dimer interface [polypeptide binding]; other site 1006007013670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007013671 catalytic residue [active] 1006007013672 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1006007013673 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 1006007013674 dimerization interface [polypeptide binding]; other site 1006007013675 domain crossover interface; other site 1006007013676 redox-dependent activation switch; other site 1006007013677 pantothenate kinase; Reviewed; Region: PRK13318 1006007013678 FtsH Extracellular; Region: FtsH_ext; pfam06480 1006007013679 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1006007013680 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 1006007013681 Walker A motif; other site 1006007013682 ATP binding site [chemical binding]; other site 1006007013683 Walker B motif; other site 1006007013684 arginine finger; other site 1006007013685 Peptidase family M41; Region: Peptidase_M41; pfam01434 1006007013686 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1006007013687 active site 1006007013688 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1006007013689 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 1006007013690 Ligand Binding Site [chemical binding]; other site 1006007013691 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1006007013692 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1006007013693 active site 1006007013694 ATP binding site [chemical binding]; other site 1006007013695 substrate binding site [chemical binding]; other site 1006007013696 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1006007013697 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1006007013698 metal ion-dependent adhesion site (MIDAS); other site 1006007013699 stage II sporulation protein E; Region: spore_II_E; TIGR02865 1006007013700 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 1006007013701 potential frameshift: common BLAST hit: gi|295702302|ref|YP_003595377.1| S1 RNA binding domain-containing protein 1006007013702 hypothetical protein; Provisional; Region: PRK08582 1006007013703 S1_RPS1_repeat_hs4: 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_hs4; cd05692 1006007013704 RNA binding site [nucleotide binding]; other site 1006007013705 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1006007013706 Septum formation initiator; Region: DivIC; cl17659 1006007013707 potential frameshift: common BLAST hit: gi|294496933|ref|YP_003560633.1| spore cortex biosynthesis protein 1006007013708 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 1006007013709 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 1006007013710 sporulation protein YabP; Region: spore_yabP; TIGR02892 1006007013711 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 1006007013712 RNA binding surface [nucleotide binding]; other site 1006007013713 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 1006007013714 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 1006007013715 putative SAM binding site [chemical binding]; other site 1006007013716 putative homodimer interface [polypeptide binding]; other site 1006007013717 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 1006007013718 homodimer interface [polypeptide binding]; other site 1006007013719 metal binding site [ion binding]; metal-binding site 1006007013720 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 1006007013721 homodimer interface [polypeptide binding]; other site 1006007013722 active site 1006007013723 putative chemical substrate binding site [chemical binding]; other site 1006007013724 metal binding site [ion binding]; metal-binding site 1006007013725 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1006007013726 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1006007013727 stage V sporulation protein T; Region: spore_V_T; TIGR02851 1006007013728 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1006007013729 GAF domain; Region: GAF; cl17456 1006007013730 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1006007013731 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 1006007013732 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 1006007013733 ATP binding site [chemical binding]; other site 1006007013734 putative Mg++ binding site [ion binding]; other site 1006007013735 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 1006007013736 nucleotide binding region [chemical binding]; other site 1006007013737 ATP-binding site [chemical binding]; other site 1006007013738 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1006007013739 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 1006007013740 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 1006007013741 putative active site [active] 1006007013742 catalytic residue [active] 1006007013743 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1006007013744 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1006007013745 5S rRNA interface [nucleotide binding]; other site 1006007013746 CTC domain interface [polypeptide binding]; other site 1006007013747 L16 interface [polypeptide binding]; other site 1006007013748 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1006007013749 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1006007013750 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1006007013751 active site 1006007013752 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1006007013753 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1006007013754 Substrate binding site; other site 1006007013755 Mg++ binding site; other site 1006007013756 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 1006007013757 active site 1006007013758 substrate binding site [chemical binding]; other site 1006007013759 CoA binding site [chemical binding]; other site 1006007013760 regulatory protein SpoVG; Reviewed; Region: PRK13259 1006007013761 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 1006007013762 homotrimer interaction site [polypeptide binding]; other site 1006007013763 putative active site [active] 1006007013764 pur operon repressor; Provisional; Region: PRK09213 1006007013765 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1006007013766 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1006007013767 active site 1006007013768 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1006007013769 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1006007013770 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1006007013771 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 1006007013772 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 1006007013773 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1006007013774 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 1006007013775 putative active site [active] 1006007013776 putative metal binding site [ion binding]; other site 1006007013777 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1006007013778 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1006007013779 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1006007013780 active site 1006007013781 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1006007013782 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1006007013783 active site 1006007013784 HIGH motif; other site 1006007013785 KMSKS motif; other site 1006007013786 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1006007013787 tRNA binding surface [nucleotide binding]; other site 1006007013788 anticodon binding site; other site 1006007013789 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 1006007013790 dimer interface [polypeptide binding]; other site 1006007013791 putative tRNA-binding site [nucleotide binding]; other site 1006007013792 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1006007013793 GIY-YIG motif/motif A; other site 1006007013794 putative active site [active] 1006007013795 putative metal binding site [ion binding]; other site 1006007013796 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1006007013797 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 1006007013798 S-adenosylmethionine binding site [chemical binding]; other site 1006007013799 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 1006007013800 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 1006007013801 DNA polymerase III subunit delta'; Validated; Region: PRK08058 1006007013802 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1006007013803 Protein of unknown function (DUF970); Region: DUF970; pfam06153 1006007013804 thymidylate kinase; Validated; Region: tmk; PRK00698 1006007013805 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 1006007013806 TMP-binding site; other site 1006007013807 ATP-binding site [chemical binding]; other site 1006007013808 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1006007013809 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 1006007013810 homodimer interface [polypeptide binding]; other site 1006007013811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1006007013812 catalytic residue [active] 1006007013813 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1006007013814 DNA gyrase subunit A; Validated; Region: PRK05560 1006007013815 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 1006007013816 CAP-like domain; other site 1006007013817 active site 1006007013818 primary dimer interface [polypeptide binding]; other site 1006007013819 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1006007013820 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1006007013821 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1006007013822 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1006007013823 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1006007013824 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1006007013825 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1006007013826 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 1006007013827 Mg2+ binding site [ion binding]; other site 1006007013828 G-X-G motif; other site 1006007013829 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 1006007013830 anchoring element; other site 1006007013831 dimer interface [polypeptide binding]; other site 1006007013832 ATP binding site [chemical binding]; other site 1006007013833 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 1006007013834 active site 1006007013835 putative metal-binding site [ion binding]; other site 1006007013836 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1006007013837 recombination protein F; Reviewed; Region: recF; PRK00064 1006007013838 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1006007013839 Walker A/P-loop; other site 1006007013840 ATP binding site [chemical binding]; other site 1006007013841 Q-loop/lid; other site 1006007013842 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1006007013843 ABC transporter signature motif; other site 1006007013844 Walker B; other site 1006007013845 D-loop; other site 1006007013846 H-loop/switch region; other site 1006007013847 S4 domain protein YaaA; Region: YaaA_near_RecF; TIGR02988 1006007013848 DNA polymerase III subunit beta; Validated; Region: PRK05643 1006007013849 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 1006007013850 putative DNA binding surface [nucleotide binding]; other site 1006007013851 dimer interface [polypeptide binding]; other site 1006007013852 beta-clamp/clamp loader binding surface; other site 1006007013853 beta-clamp/translesion DNA polymerase binding surface; other site 1006007013854 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1006007013855 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1006007013856 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 1006007013857 Walker A motif; other site 1006007013858 ATP binding site [chemical binding]; other site 1006007013859 Walker B motif; other site 1006007013860 arginine finger; other site 1006007013861 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 1006007013862 DnaA box-binding interface [nucleotide binding]; other site 1006007013863 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1006007013864 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1006007013865 catalytic residues [active] 1006007013866 catalytic nucleophile [active] 1006007013867 Presynaptic Site I dimer interface [polypeptide binding]; other site 1006007013868 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1006007013869 Synaptic Flat tetramer interface [polypeptide binding]; other site 1006007013870 Synaptic Site I dimer interface [polypeptide binding]; other site 1006007013871 DNA binding site [nucleotide binding] 1006007013872 IDEAL domain; Region: IDEAL; pfam08858 1006007013873 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 1006007013874 SET domain; Region: SET; pfam00856 1006007013875 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1006007013876 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1006007013877 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 1006007013878 DNA binding residues [nucleotide binding] 1006007013879 dimerization interface [polypeptide binding]; other site 1006007013880 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 1006007013881 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1006007013882 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg1; cd04764 1006007013883 DNA binding residues [nucleotide binding] 1006007013884 Protein of unknown function (DUF3967); Region: DUF3967; pfam13152 1006007013885 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 1006007013886 active site 1006007013887 Int/Topo IB signature motif; other site 1006007013888 DNA binding site [nucleotide binding] 1006007013889 Initiator Replication protein; Region: Rep_3; pfam01051 1006007013890 Helix-turn-helix domain; Region: HTH_36; pfam13730 1006007013891 conserved repeat domain; Region: B_ant_repeat; TIGR01451 1006007013892 AAA domain; Region: AAA_17; pfam13207 1006007013893 AAA domain; Region: AAA_18; pfam13238 1006007013894 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 1006007013895 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 1006007013896 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 1006007013897 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 1006007013898 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 1006007013899 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 1006007013900 Phosphotransferase enzyme family; Region: APH; pfam01636 1006007013901 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 1006007013902 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 1006007013903 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1006007013904 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1006007013905 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 1006007013906 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1006007013907 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 1006007013908 active site 1006007013909 ATP binding site [chemical binding]; other site 1006007013910 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1006007013911 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1006007013912 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1006007013913 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1006007013914 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1006007013915 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1006007013916 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 1006007013917 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 1006007013918 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 1006007013919 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 1006007013920 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1006007013921 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 1006007013922 active site 1006007013923 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1006007013924 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 1006007013925 active site 1006007013926 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1006007013927 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 1006007013928 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1006007013929 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 1006007013930 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1006007013931 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 1006007013932 active site 1006007013933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007013934 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1006007013935 NAD(P) binding site [chemical binding]; other site 1006007013936 active site 1006007013937 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1006007013938 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 1006007013939 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1006007013940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1006007013941 NAD(P) binding site [chemical binding]; other site 1006007013942 active site 1006007013943 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 1006007013944 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1006007013945 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1006007013946 NADP binding site [chemical binding]; other site 1006007013947 active site 1006007013948 putative substrate binding site [chemical binding]; other site 1006007013949 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1006007013950 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 1006007013951 NAD(P) binding site [chemical binding]; other site 1006007013952 homodimer interface [polypeptide binding]; other site 1006007013953 substrate binding site [chemical binding]; other site 1006007013954 active site 1006007013955 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1006007013956 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 1006007013957 active site 1006007013958 homodimer interface [polypeptide binding]; other site 1006007013959 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 1006007013960 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 1006007013961 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 1006007013962 active site 1006007013963 catalytic triad [active] 1006007013964 Protein of unknown function DUF86; Region: DUF86; cl01031 1006007013965 Protein of unknown function DUF86; Region: DUF86; pfam01934 1006007013966 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1006007013967 FAD binding domain; Region: FAD_binding_4; pfam01565 1006007013968 Berberine and berberine like; Region: BBE; pfam08031 1006007013969 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 1006007013970 catalytic residues [active] 1006007013971 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 1006007013972 putative Zn2+ binding site [ion binding]; other site 1006007013973 putative DNA binding site [nucleotide binding]; other site 1006007013974 MobA/MobL family; Region: MobA_MobL; pfam03389 1006007013975 Predicted transcriptional regulators [Transcription]; Region: COG1695 1006007013976 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1006007013977 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 1006007013978 active site 1006007013979 catalytic residues [active] 1006007013980 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1006007013981 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471